diff --git a/docs/basics/_examples/DL-101-101-101 b/docs/basics/_examples/DL-101-101-101 index 4ef899e36..51fd58921 100644 --- a/docs/basics/_examples/DL-101-101-101 +++ b/docs/basics/_examples/DL-101-101-101 @@ -4,6 +4,3 @@ $ datalad create -c text2git DataLad-101 [INFO] == Command exit (modification check follows) ===== run(ok): /home/me/dl-101/DataLad-101 (dataset) [VIRTUALENV/bin/python /home/a...] create(ok): /home/me/dl-101/DataLad-101 (dataset) -action summary: - create (ok: 1) - run (ok: 1) diff --git a/docs/basics/_examples/DL-101-102-106 b/docs/basics/_examples/DL-101-102-106 index 32a211f31..e691719fb 100644 --- a/docs/basics/_examples/DL-101-102-106 +++ b/docs/basics/_examples/DL-101-102-106 @@ -2,6 +2,3 @@ $ datalad save -m "add books on Python and Unix to read later" add(ok): books/TLCL.pdf (file) add(ok): books/byte-of-python.pdf (file) save(ok): . (dataset) -action summary: - add (ok: 2) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-102-107 b/docs/basics/_examples/DL-101-102-107 index 074dbc1f4..390bf564c 100644 --- a/docs/basics/_examples/DL-101-102-107 +++ b/docs/basics/_examples/DL-101-102-107 @@ -1,5 +1,5 @@ $ git log -p -n 1 -commit d2bb1a86✂SHA1 +commit b40316a6✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -15,9 +15,9 @@ index 0000000..4c84b61 \ No newline at end of file diff --git a/books/byte-of-python.pdf b/books/byte-of-python.pdf new file mode 120000 -index 0000000..b9fcbff +index 0000000..7a6e51e --- /dev/null +++ b/books/byte-of-python.pdf @@ -0,0 +1 @@ -+../.git/annex/objects/P5/qK/✂/MD5E-s2693891--e61afe4b✂MD5.pdf ++../.git/annex/objects/xF/42/✂/MD5E-s4161086--c832fc13✂MD5.pdf \ No newline at end of file diff --git a/docs/basics/_examples/DL-101-102-110 b/docs/basics/_examples/DL-101-102-110 index f569ce228..584f52a4a 100644 --- a/docs/basics/_examples/DL-101-102-110 +++ b/docs/basics/_examples/DL-101-102-110 @@ -1,6 +1,3 @@ $ datalad save -m "add reference book about git" books/progit.pdf add(ok): books/progit.pdf (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-102-111 b/docs/basics/_examples/DL-101-102-111 index 2e7b143ff..a9126c52d 100644 --- a/docs/basics/_examples/DL-101-102-111 +++ b/docs/basics/_examples/DL-101-102-111 @@ -1,6 +1,6 @@ # lets make the output a bit more concise with the --oneline option $ git log --oneline -8e5dc80 add reference book about git -d2bb1a8 add books on Python and Unix to read later +a875e49 add reference book about git +b40316a add books on Python and Unix to read later e0ff3a7 Instruct annex to add text files to Git 4ce681d [DATALAD] new dataset diff --git a/docs/basics/_examples/DL-101-102-112 b/docs/basics/_examples/DL-101-102-112 index 6796f302e..5cc9407bc 100644 --- a/docs/basics/_examples/DL-101-102-112 +++ b/docs/basics/_examples/DL-101-102-112 @@ -7,7 +7,3 @@ $ datalad download-url \ download_url(ok): /home/me/dl-101/DataLad-101/books/bash_guide.pdf (file) add(ok): books/bash_guide.pdf (file) save(ok): . (dataset) -action summary: - add (ok: 1) - download_url (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-102-115 b/docs/basics/_examples/DL-101-102-115 index d4586eaef..675df6c33 100644 --- a/docs/basics/_examples/DL-101-102-115 +++ b/docs/basics/_examples/DL-101-102-115 @@ -1,5 +1,5 @@ $ git log -p -n 1 -commit bcb0ffe8✂SHA1 +commit 59ac8d32✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-102-116 b/docs/basics/_examples/DL-101-102-116 index 6a12ebe43..91218e617 100644 --- a/docs/basics/_examples/DL-101-102-116 +++ b/docs/basics/_examples/DL-101-102-116 @@ -1,6 +1,6 @@ $ git log --oneline -bcb0ffe add beginners guide on bash -8e5dc80 add reference book about git -d2bb1a8 add books on Python and Unix to read later +59ac8d3 add beginners guide on bash +a875e49 add reference book about git +b40316a add books on Python and Unix to read later e0ff3a7 Instruct annex to add text files to Git 4ce681d [DATALAD] new dataset diff --git a/docs/basics/_examples/DL-101-103-103 b/docs/basics/_examples/DL-101-103-103 index c82b8d051..011069005 100644 --- a/docs/basics/_examples/DL-101-103-103 +++ b/docs/basics/_examples/DL-101-103-103 @@ -1,6 +1,3 @@ $ datalad save -m "Add notes on datalad create" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-103-106 b/docs/basics/_examples/DL-101-103-106 index 2ff261d19..50481d9c7 100644 --- a/docs/basics/_examples/DL-101-103-106 +++ b/docs/basics/_examples/DL-101-103-106 @@ -1,6 +1,3 @@ $ datalad save -m "add note on datalad save" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-103-107 b/docs/basics/_examples/DL-101-103-107 index c980506a5..005b83dee 100644 --- a/docs/basics/_examples/DL-101-103-107 +++ b/docs/basics/_examples/DL-101-103-107 @@ -1,5 +1,5 @@ $ git log -p -n 2 -commit 9783a90c✂SHA1 +commit e310b465✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -18,7 +18,7 @@ index 3a7a1fe..0142412 100644 +Note to self: Always use informative, concise commit messages. + -commit b538dae3✂SHA1 +commit 874d766f✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-105-102 b/docs/basics/_examples/DL-101-105-102 index 554c93027..055fa8518 100644 --- a/docs/basics/_examples/DL-101-105-102 +++ b/docs/basics/_examples/DL-101-105-102 @@ -1,20 +1,10 @@ $ datalad clone --dataset . \ https://github.com/datalad-datasets/longnow-podcasts.git recordings/longnow [INFO] Attempting a clone into /home/me/dl-101/DataLad-101/recordings/longnow -[INFO] Attempting to clone from https://github.com/datalad-datasets/longnow-podcasts.git to /home/me/dl-101/DataLad-101/recordings/longnow -[INFO] Start enumerating objects -[INFO] Start receiving objects -[INFO] Start resolving deltas -[INFO] Completed clone attempts for Dataset(/home/me/dl-101/DataLad-101/recordings/longnow) [INFO] Remote origin not usable by git-annex; setting annex-ignore -[INFO] https://github.com/datalad-datasets/longnow-podcasts.git/config download failed: Not Found install(ok): recordings/longnow (dataset) add(ok): recordings/longnow (dataset) add(ok): .gitmodules (file) save(ok): . (dataset) add(ok): .gitmodules (file) save(ok): . (dataset) -action summary: - add (ok: 3) - install (ok: 1) - save (ok: 2) diff --git a/docs/basics/_examples/DL-101-105-115 b/docs/basics/_examples/DL-101-105-115 index 8310e781d..406561717 100644 --- a/docs/basics/_examples/DL-101-105-115 +++ b/docs/basics/_examples/DL-101-105-115 @@ -10,6 +10,3 @@ EOT $ datalad save -m "Add note on datalad clone" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-106-101 b/docs/basics/_examples/DL-101-106-101 index 474cd04a4..0628f46ee 100644 --- a/docs/basics/_examples/DL-101-106-101 +++ b/docs/basics/_examples/DL-101-106-101 @@ -1,5 +1,5 @@ $ git log -p -n 3 -commit fa63a083✂SHA1 +commit 87609a36✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -19,7 +19,7 @@ index 0142412..e34ef1f 100644 +superdataset with the '-d' option. + -commit 7c489fbf✂SHA1 +commit 3c016f73✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -44,7 +44,7 @@ index 0000000..dcc34fb @@ -0,0 +1 @@ +Subproject commit dcc34fbe✂SHA1 -commit 9783a90c✂SHA1 +commit e310b465✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -63,7 +63,7 @@ index 3a7a1fe..0142412 100644 +Note to self: Always use informative, concise commit messages. + -commit b538dae3✂SHA1 +commit 874d766f✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -79,7 +79,7 @@ index 0000000..3a7a1fe +The dataset is created empty + -commit bcb0ffe8✂SHA1 +commit 59ac8d32✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -94,7 +94,7 @@ index 0000000..00ca6bd +../.git/annex/objects/WF/Gq/✂/MD5E-s1198170--0ab2c121✂MD5.pdf \ No newline at end of file -commit 8e5dc808✂SHA1 +commit a875e496✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -109,7 +109,7 @@ index 0000000..c5d2ab2 +../.git/annex/objects/G6/Gj/✂/MD5E-s12465653--05cd7ed5✂MD5.pdf \ No newline at end of file -commit d2bb1a86✂SHA1 +commit b40316a6✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -125,11 +125,11 @@ index 0000000..4c84b61 \ No newline at end of file diff --git a/books/byte-of-python.pdf b/books/byte-of-python.pdf new file mode 120000 -index 0000000..b9fcbff +index 0000000..7a6e51e --- /dev/null +++ b/books/byte-of-python.pdf @@ -0,0 +1 @@ -+../.git/annex/objects/P5/qK/✂/MD5E-s2693891--e61afe4b✂MD5.pdf ++../.git/annex/objects/xF/42/✂/MD5E-s4161086--c832fc13✂MD5.pdf \ No newline at end of file commit e0ff3a73✂SHA1 diff --git a/docs/basics/_examples/DL-101-108-104 b/docs/basics/_examples/DL-101-108-104 index f92f6b8c0..83a4af100 100644 --- a/docs/basics/_examples/DL-101-108-104 +++ b/docs/basics/_examples/DL-101-108-104 @@ -1,6 +1,3 @@ $ datalad save -m "Add short script to write a list of podcast speakers and titles" add(ok): code/list_titles.sh (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-108-106 b/docs/basics/_examples/DL-101-108-106 index 0acce7e09..12ac357de 100644 --- a/docs/basics/_examples/DL-101-108-106 +++ b/docs/basics/_examples/DL-101-108-106 @@ -1,5 +1,5 @@ $ git log -p -n 1 # On Windows, you may just want to type "git log". -commit f4f30396✂SHA1 +commit e37c9fc9✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-108-108 b/docs/basics/_examples/DL-101-108-108 index 0e2efcd2f..c8a1ae449 100644 --- a/docs/basics/_examples/DL-101-108-108 +++ b/docs/basics/_examples/DL-101-108-108 @@ -1,12 +1,12 @@ $ git log --oneline -f4f3039 [DATALAD RUNCMD] create a list of podcast titles -50addd7 Add short script to write a list of podcast speakers and titles -fa63a08 Add note on datalad clone -7c489fb [DATALAD] Added subdataset -9783a90 add note on datalad save -b538dae Add notes on datalad create -bcb0ffe add beginners guide on bash -8e5dc80 add reference book about git -d2bb1a8 add books on Python and Unix to read later +e37c9fc [DATALAD RUNCMD] create a list of podcast titles +e799b6b Add short script to write a list of podcast speakers and titles +87609a3 Add note on datalad clone +3c016f7 [DATALAD] Added subdataset +e310b46 add note on datalad save +874d766 Add notes on datalad create +59ac8d3 add beginners guide on bash +a875e49 add reference book about git +b40316a add books on Python and Unix to read later e0ff3a7 Instruct annex to add text files to Git 4ce681d [DATALAD] new dataset diff --git a/docs/basics/_examples/DL-101-109-104 b/docs/basics/_examples/DL-101-109-104 index 33683c479..7f8a2d25e 100644 --- a/docs/basics/_examples/DL-101-109-104 +++ b/docs/basics/_examples/DL-101-109-104 @@ -2,6 +2,3 @@ $ datalad save -m "BF: list both directories content" \ code/list_titles.sh add(ok): code/list_titles.sh (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-109-105 b/docs/basics/_examples/DL-101-109-105 index f07a1f963..1d367ffff 100644 --- a/docs/basics/_examples/DL-101-109-105 +++ b/docs/basics/_examples/DL-101-109-105 @@ -1,11 +1,11 @@ $ git log -n 2 -commit 07db512b✂SHA1 +commit f7ea9f3d✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 BF: list both directories content -commit f4f30396✂SHA1 +commit e37c9fc9✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-109-106 b/docs/basics/_examples/DL-101-109-106 index 07649da23..f9cc73d49 100644 --- a/docs/basics/_examples/DL-101-109-106 +++ b/docs/basics/_examples/DL-101-109-106 @@ -1,6 +1,6 @@ -$ datalad rerun f4f30396✂SHA1 -[INFO] run commit f4f3039; (create a list of ...) +$ datalad rerun e37c9fc9✂SHA1 +[INFO] run commit e37c9fc; (create a list of ...) [INFO] == Command start (output follows) ===== [INFO] == Command exit (modification check follows) ===== run(ok): /home/me/dl-101/DataLad-101 (dataset) [bash code/list_titles.sh > recordings/po...] diff --git a/docs/basics/_examples/DL-101-109-107 b/docs/basics/_examples/DL-101-109-107 index a5323a3fc..609753961 100644 --- a/docs/basics/_examples/DL-101-109-107 +++ b/docs/basics/_examples/DL-101-109-107 @@ -1,5 +1,5 @@ $ git log -n 1 -commit f4916ccb✂SHA1 +commit 08120c38✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -8,7 +8,7 @@ Date: Tue Jun 18 16:13:00 2019 +0000 === Do not change lines below === { "chain": [ - "f4f30396✂SHA1" + "e37c9fc9✂SHA1" ], "cmd": "bash code/list_titles.sh > recordings/podcasts.tsv", "dsid": "e3e70682-c209-4cac-629f-6fbed82c07cd", diff --git a/docs/basics/_examples/DL-101-109-111 b/docs/basics/_examples/DL-101-109-111 index 612cc39fb..992133d63 100644 --- a/docs/basics/_examples/DL-101-109-111 +++ b/docs/basics/_examples/DL-101-109-111 @@ -1,6 +1,3 @@ $ datalad save -m "add note datalad and git diff" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-109-112 b/docs/basics/_examples/DL-101-109-112 index 4c425af7b..6b8b1f353 100644 --- a/docs/basics/_examples/DL-101-109-112 +++ b/docs/basics/_examples/DL-101-109-112 @@ -1,5 +1,5 @@ $ git log -- recordings/podcasts.tsv -commit f4916ccb✂SHA1 +commit 08120c38✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -8,7 +8,7 @@ Date: Tue Jun 18 16:13:00 2019 +0000 === Do not change lines below === { "chain": [ - "f4f30396✂SHA1" + "e37c9fc9✂SHA1" ], "cmd": "bash code/list_titles.sh > recordings/podcasts.tsv", "dsid": "e3e70682-c209-4cac-629f-6fbed82c07cd", @@ -20,7 +20,7 @@ Date: Tue Jun 18 16:13:00 2019 +0000 } ^^^ Do not change lines above ^^^ -commit f4f30396✂SHA1 +commit e37c9fc9✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-109-114 b/docs/basics/_examples/DL-101-109-114 index 1f173224d..af265f6c6 100644 --- a/docs/basics/_examples/DL-101-109-114 +++ b/docs/basics/_examples/DL-101-109-114 @@ -1,6 +1,3 @@ $ datalad save -m "add note on basic datalad run and datalad rerun" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-111-104 b/docs/basics/_examples/DL-101-111-104 index 31d7e5a9e..f2b6567b9 100644 --- a/docs/basics/_examples/DL-101-111-104 +++ b/docs/basics/_examples/DL-101-111-104 @@ -1,6 +1,3 @@ $ datalad save -m "resized picture by hand" add(ok): recordings/salt_logo_small.jpg (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-112-103 b/docs/basics/_examples/DL-101-112-103 index f536e904e..970231d4a 100644 --- a/docs/basics/_examples/DL-101-112-103 +++ b/docs/basics/_examples/DL-101-112-103 @@ -1,6 +1,3 @@ $ datalad save -m "add additional notes on run options" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-112-108 b/docs/basics/_examples/DL-101-112-108 index d9bce4123..a30e768c1 100644 --- a/docs/basics/_examples/DL-101-112-108 +++ b/docs/basics/_examples/DL-101-112-108 @@ -1,6 +1,3 @@ $ datalad save -m "add note on clean datasets" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-112-109 b/docs/basics/_examples/DL-101-112-109 index 2b8ba061d..8742724be 100644 --- a/docs/basics/_examples/DL-101-112-109 +++ b/docs/basics/_examples/DL-101-112-109 @@ -1,5 +1,5 @@ $ git log -p -n 2 -commit b5fc1296✂SHA1 +commit 41fdaab8✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -20,7 +20,7 @@ index 6a465f0..e2829b2 100644 +those changes done to the files listed with --output flags. + -commit d5845d33✂SHA1 +commit fd4a25e6✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-114-101 b/docs/basics/_examples/DL-101-114-101 index 17b5c0aca..2c060e0e4 100644 --- a/docs/basics/_examples/DL-101-114-101 +++ b/docs/basics/_examples/DL-101-114-101 @@ -1,23 +1,23 @@ $ git log --reverse --oneline 4ce681d [DATALAD] new dataset e0ff3a7 Instruct annex to add text files to Git -d2bb1a8 add books on Python and Unix to read later -8e5dc80 add reference book about git -bcb0ffe add beginners guide on bash -b538dae Add notes on datalad create -9783a90 add note on datalad save -7c489fb [DATALAD] Added subdataset -fa63a08 Add note on datalad clone -50addd7 Add short script to write a list of podcast speakers and titles -f4f3039 [DATALAD RUNCMD] create a list of podcast titles -07db512 BF: list both directories content -f4916cc [DATALAD RUNCMD] create a list of podcast titles -572fd65 add note datalad and git diff -4009576 add note on basic datalad run and datalad rerun -be503c3 [DATALAD RUNCMD] convert -resize 400x400 recordings/longn... -9369462 resized picture by hand -a4044db [DATALAD RUNCMD] convert -resize 450x450 recordings/longn... -af9ca10 add additional notes on run options -d24531d [DATALAD RUNCMD] Resize logo for slides -d5845d3 [DATALAD RUNCMD] Resize logo for slides -b5fc129 add note on clean datasets +b40316a add books on Python and Unix to read later +a875e49 add reference book about git +59ac8d3 add beginners guide on bash +874d766 Add notes on datalad create +e310b46 add note on datalad save +3c016f7 [DATALAD] Added subdataset +87609a3 Add note on datalad clone +e799b6b Add short script to write a list of podcast speakers and titles +e37c9fc [DATALAD RUNCMD] create a list of podcast titles +f7ea9f3 BF: list both directories content +08120c3 [DATALAD RUNCMD] create a list of podcast titles +cdedbc3 add note datalad and git diff +4b7a0a0 add note on basic datalad run and datalad rerun +6686234 [DATALAD RUNCMD] convert -resize 400x400 recordings/longn... +5227d93 resized picture by hand +d0c060f [DATALAD RUNCMD] convert -resize 450x450 recordings/longn... +87b4f80 add additional notes on run options +08f2efb [DATALAD RUNCMD] Resize logo for slides +fd4a25e [DATALAD RUNCMD] Resize logo for slides +41fdaab add note on clean datasets diff --git a/docs/basics/_examples/DL-101-115-101 b/docs/basics/_examples/DL-101-115-101 index 31a129c09..97ff6464f 100644 --- a/docs/basics/_examples/DL-101-115-101 +++ b/docs/basics/_examples/DL-101-115-101 @@ -3,7 +3,7 @@ $ cd books $ tree . ├── bash_guide.pdf -> ../.git/annex/objects/WF/Gq/✂/MD5E-s1198170--0ab2c121✂MD5.pdf -├── byte-of-python.pdf -> ../.git/annex/objects/P5/qK/✂/MD5E-s2693891--e61afe4b✂MD5.pdf +├── byte-of-python.pdf -> ../.git/annex/objects/xF/42/✂/MD5E-s4161086--c832fc13✂MD5.pdf ├── progit.pdf -> ../.git/annex/objects/G6/Gj/✂/MD5E-s12465653--05cd7ed5✂MD5.pdf └── TLCL.pdf -> ../.git/annex/objects/jf/3M/✂/MD5E-s2120211--06d1efcb✂MD5.pdf diff --git a/docs/basics/_examples/DL-101-115-103 b/docs/basics/_examples/DL-101-115-103 index f5b77a2f9..2787c9078 100644 --- a/docs/basics/_examples/DL-101-115-103 +++ b/docs/basics/_examples/DL-101-115-103 @@ -1,6 +1,6 @@ $ ls -lh total 16K lrwxrwxrwx 1 elena elena 131 2019-06-18 16:13 bash_guide.pdf -> ../.git/annex/objects/WF/Gq/✂/MD5E-s1198170--0ab2c121✂MD5.pdf -lrwxrwxrwx 1 elena elena 131 2019-06-18 16:13 byte-of-python.pdf -> ../.git/annex/objects/P5/qK/✂/MD5E-s2693891--e61afe4b✂MD5.pdf +lrwxrwxrwx 1 elena elena 131 2019-06-18 16:13 byte-of-python.pdf -> ../.git/annex/objects/xF/42/✂/MD5E-s4161086--c832fc13✂MD5.pdf lrwxrwxrwx 1 elena elena 133 2019-06-18 16:13 progit.pdf -> ../.git/annex/objects/G6/Gj/✂/MD5E-s12465653--05cd7ed5✂MD5.pdf lrwxrwxrwx 1 elena elena 131 2019-06-18 16:13 TLCL.pdf -> ../.git/annex/objects/jf/3M/✂/MD5E-s2120211--06d1efcb✂MD5.pdf diff --git a/docs/basics/_examples/DL-101-116-102 b/docs/basics/_examples/DL-101-116-102 index c1040715b..3ea1bd6bc 100644 --- a/docs/basics/_examples/DL-101-116-102 +++ b/docs/basics/_examples/DL-101-116-102 @@ -1,6 +1,4 @@ $ cd mock_user $ datalad clone --description "DataLad-101 in mock_user" ../DataLad-101 [INFO] Attempting a clone into /home/me/dl-101/mock_user/DataLad-101 -[INFO] Attempting to clone from ../DataLad-101 to /home/me/dl-101/mock_user/DataLad-101 -[INFO] Completed clone attempts for Dataset(/home/me/dl-101/mock_user/DataLad-101) install(ok): /home/me/dl-101/mock_user/DataLad-101 (dataset) diff --git a/docs/basics/_examples/DL-101-116-103 b/docs/basics/_examples/DL-101-116-103 index 2da69fa4b..d59cda51a 100644 --- a/docs/basics/_examples/DL-101-116-103 +++ b/docs/basics/_examples/DL-101-116-103 @@ -3,7 +3,7 @@ $ tree . ├── books │   ├── bash_guide.pdf -> ../.git/annex/objects/WF/Gq/✂/MD5E-s1198170--0ab2c121✂MD5.pdf -│   ├── byte-of-python.pdf -> ../.git/annex/objects/P5/qK/✂/MD5E-s2693891--e61afe4b✂MD5.pdf +│   ├── byte-of-python.pdf -> ../.git/annex/objects/xF/42/✂/MD5E-s4161086--c832fc13✂MD5.pdf │   ├── progit.pdf -> ../.git/annex/objects/G6/Gj/✂/MD5E-s12465653--05cd7ed5✂MD5.pdf │   └── TLCL.pdf -> ../.git/annex/objects/jf/3M/✂/MD5E-s2120211--06d1efcb✂MD5.pdf ├── code diff --git a/docs/basics/_examples/DL-101-116-107 b/docs/basics/_examples/DL-101-116-107 index b269fa131..482e55c94 100644 --- a/docs/basics/_examples/DL-101-116-107 +++ b/docs/basics/_examples/DL-101-116-107 @@ -1,10 +1,4 @@ $ datalad get -n recordings/longnow [INFO] Attempting a clone into /home/me/dl-101/mock_user/DataLad-101/recordings/longnow -[INFO] Attempting to clone from https://github.com/datalad-datasets/longnow-podcasts.git to /home/me/dl-101/mock_user/DataLad-101/recordings/longnow -[INFO] Start enumerating objects -[INFO] Start receiving objects -[INFO] Start resolving deltas -[INFO] Completed clone attempts for Dataset(/home/me/dl-101/mock_user/DataLad-101/recordings/longnow) [INFO] Remote origin not usable by git-annex; setting annex-ignore -[INFO] https://github.com/datalad-datasets/longnow-podcasts.git/config download failed: Not Found install(ok): /home/me/dl-101/mock_user/DataLad-101/recordings/longnow (dataset) [Installed subdataset in order to get /home/me/dl-101/mock_user/DataLad-101/recordings/longnow] diff --git a/docs/basics/_examples/DL-101-116-108 b/docs/basics/_examples/DL-101-116-108 index 7875f7be6..a24121184 100644 --- a/docs/basics/_examples/DL-101-116-108 +++ b/docs/basics/_examples/DL-101-116-108 @@ -2,7 +2,7 @@ $ tree . ├── books │   ├── bash_guide.pdf -> ../.git/annex/objects/WF/Gq/✂/MD5E-s1198170--0ab2c121✂MD5.pdf -│   ├── byte-of-python.pdf -> ../.git/annex/objects/P5/qK/✂/MD5E-s2693891--e61afe4b✂MD5.pdf +│   ├── byte-of-python.pdf -> ../.git/annex/objects/xF/42/✂/MD5E-s4161086--c832fc13✂MD5.pdf │   ├── progit.pdf -> ../.git/annex/objects/G6/Gj/✂/MD5E-s12465653--05cd7ed5✂MD5.pdf │   └── TLCL.pdf -> ../.git/annex/objects/jf/3M/✂/MD5E-s2120211--06d1efcb✂MD5.pdf ├── code diff --git a/docs/basics/_examples/DL-101-116-110 b/docs/basics/_examples/DL-101-116-110 index 32fd7a749..b77a7515f 100644 --- a/docs/basics/_examples/DL-101-116-110 +++ b/docs/basics/_examples/DL-101-116-110 @@ -1,6 +1,3 @@ $ datalad save -m "add note about cloning from paths and recursive datalad get" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-117-107 b/docs/basics/_examples/DL-101-117-107 index ec9f20957..10f70ac4d 100644 --- a/docs/basics/_examples/DL-101-117-107 +++ b/docs/basics/_examples/DL-101-117-107 @@ -1,6 +1,3 @@ $ datalad save -m "add note on git annex whereis" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-118-102 b/docs/basics/_examples/DL-101-118-102 index 044354540..40f77da26 100644 --- a/docs/basics/_examples/DL-101-118-102 +++ b/docs/basics/_examples/DL-101-118-102 @@ -1,12 +1,12 @@ # lets view the history $ git log --oneline -n 10 -b5fc129 add note on clean datasets -d5845d3 [DATALAD RUNCMD] Resize logo for slides -d24531d [DATALAD RUNCMD] Resize logo for slides -af9ca10 add additional notes on run options -a4044db [DATALAD RUNCMD] convert -resize 450x450 recordings/longn... -9369462 resized picture by hand -be503c3 [DATALAD RUNCMD] convert -resize 400x400 recordings/longn... -4009576 add note on basic datalad run and datalad rerun -572fd65 add note datalad and git diff -f4916cc [DATALAD RUNCMD] create a list of podcast titles +41fdaab add note on clean datasets +fd4a25e [DATALAD RUNCMD] Resize logo for slides +08f2efb [DATALAD RUNCMD] Resize logo for slides +87b4f80 add additional notes on run options +d0c060f [DATALAD RUNCMD] convert -resize 450x450 recordings/longn... +5227d93 resized picture by hand +6686234 [DATALAD RUNCMD] convert -resize 400x400 recordings/longn... +4b7a0a0 add note on basic datalad run and datalad rerun +cdedbc3 add note datalad and git diff +08120c3 [DATALAD RUNCMD] create a list of podcast titles diff --git a/docs/basics/_examples/DL-101-118-103 b/docs/basics/_examples/DL-101-118-103 index b9534c8bf..2eb5ac639 100644 --- a/docs/basics/_examples/DL-101-118-103 +++ b/docs/basics/_examples/DL-101-118-103 @@ -1,6 +1,6 @@ -$ datalad rerun d5845d33✂SHA1 -[INFO] run commit d5845d3; (Resize logo for s...) +$ datalad rerun fd4a25e6✂SHA1 +[INFO] run commit fd4a25e; (Resize logo for s...) [INFO] Making sure inputs are available (this may take some time) get(ok): recordings/longnow/.datalad/feed_metadata/logo_salt.jpg (file) [from web...] run.remove(ok): recordings/salt_logo_small.jpg (file) [Removed file] diff --git a/docs/basics/_examples/DL-101-119-102 b/docs/basics/_examples/DL-101-119-102 index f5b131274..c227b704b 100644 --- a/docs/basics/_examples/DL-101-119-102 +++ b/docs/basics/_examples/DL-101-119-102 @@ -1,12 +1,5 @@ $ datalad update --how merge [INFO] Fetching updates for Dataset(/home/me/dl-101/mock_user/DataLad-101) -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects merge(ok): . (dataset) [Merged origin/main] update.annex_merge(ok): . (dataset) [Merged annex branch] update(ok): . (dataset) -action summary: - merge (ok: 1) - update (ok: 1) - update.annex_merge (ok: 1) diff --git a/docs/basics/_examples/DL-101-119-105 b/docs/basics/_examples/DL-101-119-105 index 6a5592426..342e631eb 100644 --- a/docs/basics/_examples/DL-101-119-105 +++ b/docs/basics/_examples/DL-101-119-105 @@ -3,6 +3,3 @@ $ datalad save -m "add note about datalad update" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-121-101 b/docs/basics/_examples/DL-101-121-101 index 974e60dac..1b68e4328 100644 --- a/docs/basics/_examples/DL-101-121-101 +++ b/docs/basics/_examples/DL-101-121-101 @@ -11,7 +11,3 @@ $ datalad download-url \ download_url(ok): /home/me/dl-101/mock_user/DataLad-101/code/nested_repos.sh (file) add(ok): code/nested_repos.sh (file) save(ok): . (dataset) -action summary: - add (ok: 1) - download_url (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-121-103 b/docs/basics/_examples/DL-101-121-103 index 5e9044a95..e4cf735f2 100644 --- a/docs/basics/_examples/DL-101-121-103 +++ b/docs/basics/_examples/DL-101-121-103 @@ -1,5 +1,5 @@ $ git log -n 1 -p -commit 28a99fb2✂SHA1 +commit 5b6e19a5✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-121-106 b/docs/basics/_examples/DL-101-121-106 index b507cd971..5db41d76b 100644 --- a/docs/basics/_examples/DL-101-121-106 +++ b/docs/basics/_examples/DL-101-121-106 @@ -1,6 +1,3 @@ $ datalad update -s roommate [INFO] Fetching updates for Dataset(/home/me/dl-101/DataLad-101) -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects update(ok): . (dataset) diff --git a/docs/basics/_examples/DL-101-121-110 b/docs/basics/_examples/DL-101-121-110 index b2bfe17fd..14b1e5102 100644 --- a/docs/basics/_examples/DL-101-121-110 +++ b/docs/basics/_examples/DL-101-121-110 @@ -3,7 +3,3 @@ $ datalad update --how merge -s roommate merge(ok): . (dataset) [Merged roommate/main] update.annex_merge(ok): . (dataset) [Merged annex branch] update(ok): . (dataset) -action summary: - merge (ok: 1) - update (ok: 1) - update.annex_merge (ok: 1) diff --git a/docs/basics/_examples/DL-101-121-112 b/docs/basics/_examples/DL-101-121-112 index 25e9bffa5..a1c282b8c 100644 --- a/docs/basics/_examples/DL-101-121-112 +++ b/docs/basics/_examples/DL-101-121-112 @@ -1,28 +1,28 @@ $ git log --oneline -0fbbe8c Merge remote-tracking branch 'roommate/main' -81bf4d3 add note about datalad update -28a99fb Include nesting demo from datalad website -26595f2 add note on git annex whereis -afa2884 add note about cloning from paths and recursive datalad get -b5fc129 add note on clean datasets -d5845d3 [DATALAD RUNCMD] Resize logo for slides -d24531d [DATALAD RUNCMD] Resize logo for slides -af9ca10 add additional notes on run options -a4044db [DATALAD RUNCMD] convert -resize 450x450 recordings/longn... -9369462 resized picture by hand -be503c3 [DATALAD RUNCMD] convert -resize 400x400 recordings/longn... -4009576 add note on basic datalad run and datalad rerun -572fd65 add note datalad and git diff -f4916cc [DATALAD RUNCMD] create a list of podcast titles -07db512 BF: list both directories content -f4f3039 [DATALAD RUNCMD] create a list of podcast titles -50addd7 Add short script to write a list of podcast speakers and titles -fa63a08 Add note on datalad clone -7c489fb [DATALAD] Added subdataset -9783a90 add note on datalad save -b538dae Add notes on datalad create -bcb0ffe add beginners guide on bash -8e5dc80 add reference book about git -d2bb1a8 add books on Python and Unix to read later +6ae8e71 Merge remote-tracking branch 'roommate/main' +4bb5d39 add note about datalad update +5b6e19a Include nesting demo from datalad website +adb4b5d add note on git annex whereis +1e73592 add note about cloning from paths and recursive datalad get +41fdaab add note on clean datasets +fd4a25e [DATALAD RUNCMD] Resize logo for slides +08f2efb [DATALAD RUNCMD] Resize logo for slides +87b4f80 add additional notes on run options +d0c060f [DATALAD RUNCMD] convert -resize 450x450 recordings/longn... +5227d93 resized picture by hand +6686234 [DATALAD RUNCMD] convert -resize 400x400 recordings/longn... +4b7a0a0 add note on basic datalad run and datalad rerun +cdedbc3 add note datalad and git diff +08120c3 [DATALAD RUNCMD] create a list of podcast titles +f7ea9f3 BF: list both directories content +e37c9fc [DATALAD RUNCMD] create a list of podcast titles +e799b6b Add short script to write a list of podcast speakers and titles +87609a3 Add note on datalad clone +3c016f7 [DATALAD] Added subdataset +e310b46 add note on datalad save +874d766 Add notes on datalad create +59ac8d3 add beginners guide on bash +a875e49 add reference book about git +b40316a add books on Python and Unix to read later e0ff3a7 Instruct annex to add text files to Git 4ce681d [DATALAD] new dataset diff --git a/docs/basics/_examples/DL-101-121-113 b/docs/basics/_examples/DL-101-121-113 index a83667cde..45191a5ba 100644 --- a/docs/basics/_examples/DL-101-121-113 +++ b/docs/basics/_examples/DL-101-121-113 @@ -12,6 +12,3 @@ EOT $ datalad save -m "Add note on adding siblings" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-123-111 b/docs/basics/_examples/DL-101-123-111 index a0d16a364..559e2cd95 100644 --- a/docs/basics/_examples/DL-101-123-111 +++ b/docs/basics/_examples/DL-101-123-111 @@ -1,6 +1,3 @@ $ datalad save -m "add note on configurations and git config" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-124-105 b/docs/basics/_examples/DL-101-124-105 index 8365c9705..55d40c289 100644 --- a/docs/basics/_examples/DL-101-124-105 +++ b/docs/basics/_examples/DL-101-124-105 @@ -1,6 +1,3 @@ $ datalad save -m "add custom procedure" add(ok): .datalad/procedures/example.py (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-124-106 b/docs/basics/_examples/DL-101-124-106 index 354f7fbc6..789f0bf6c 100644 --- a/docs/basics/_examples/DL-101-124-106 +++ b/docs/basics/_examples/DL-101-124-106 @@ -5,8 +5,5 @@ add(ok): example2 (file) add(ok): somedir/example (file) add(ok): .gitattributes (file) save(ok): . (dataset) -action summary: - add (ok: 3) - save (ok: 1) [INFO] == Command exit (modification check follows) ===== run(ok): /home/me/procs/somedataset (dataset) [VIRTUALENV/bin/python /home/m...] diff --git a/docs/basics/_examples/DL-101-124-109 b/docs/basics/_examples/DL-101-124-109 index 99b7d0e6c..a55d4d61e 100644 --- a/docs/basics/_examples/DL-101-124-109 +++ b/docs/basics/_examples/DL-101-124-109 @@ -2,6 +2,3 @@ $ git config -f .datalad/config datalad.procedures.example.help "A toy example" $ datalad save -m "add help description" add(ok): .datalad/config (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-124-112 b/docs/basics/_examples/DL-101-124-112 index 7f8f8aac2..aec19687a 100644 --- a/docs/basics/_examples/DL-101-124-112 +++ b/docs/basics/_examples/DL-101-124-112 @@ -1,6 +1,3 @@ $ datalad save -m "add note on DataLad's procedures" add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-130-102 b/docs/basics/_examples/DL-101-130-102 index 86374ea5c..08d14c34c 100644 --- a/docs/basics/_examples/DL-101-130-102 +++ b/docs/basics/_examples/DL-101-130-102 @@ -4,7 +4,3 @@ $ datalad download-url https://gist.githubusercontent.com/netj/8836201/raw/6f930 download_url(ok): /home/me/dl-101/iris_data/iris.csv (file) add(ok): iris.csv (file) save(ok): . (dataset) -action summary: - add (ok: 1) - download_url (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-130-103 b/docs/basics/_examples/DL-101-130-103 index 67d91f384..2bfa3ecb5 100644 --- a/docs/basics/_examples/DL-101-130-103 +++ b/docs/basics/_examples/DL-101-130-103 @@ -8,8 +8,3 @@ add(ok): midterm_project (dataset) add(ok): .gitmodules (file) save(ok): . (dataset) create(ok): midterm_project (dataset) -action summary: - add (ok: 2) - create (ok: 1) - run (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-130-105 b/docs/basics/_examples/DL-101-130-105 index 01dc655a9..f995014b1 100644 --- a/docs/basics/_examples/DL-101-130-105 +++ b/docs/basics/_examples/DL-101-130-105 @@ -4,22 +4,10 @@ $ datalad clone -d . \ https://github.com/datalad-handbook/iris_data.git \ input/ [INFO] Attempting a clone into /home/me/dl-101/DataLad-101/midterm_project/input -[INFO] Attempting to clone from https://github.com/datalad-handbook/iris_data.git to /home/me/dl-101/DataLad-101/midterm_project/input -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start receiving objects -[INFO] Start resolving deltas -[INFO] Completed clone attempts for Dataset(/home/me/dl-101/DataLad-101/midterm_project/input) [INFO] Remote origin not usable by git-annex; setting annex-ignore -[INFO] https://github.com/datalad-handbook/iris_data.git/config download failed: Not Found install(ok): input (dataset) add(ok): input (dataset) add(ok): .gitmodules (file) save(ok): . (dataset) add(ok): .gitmodules (file) save(ok): . (dataset) -action summary: - add (ok: 3) - install (ok: 1) - save (ok: 2) diff --git a/docs/basics/_examples/DL-101-130-109 b/docs/basics/_examples/DL-101-130-109 index ce510c376..e554b9ec6 100644 --- a/docs/basics/_examples/DL-101-130-109 +++ b/docs/basics/_examples/DL-101-130-109 @@ -3,6 +3,3 @@ $ datalad save -m "add script for kNN classification and plotting" \ code/script.py add(ok): code/script.py (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-130-110 b/docs/basics/_examples/DL-101-130-110 index 8b6e5a2be..2963538e0 100644 --- a/docs/basics/_examples/DL-101-130-110 +++ b/docs/basics/_examples/DL-101-130-110 @@ -1,5 +1,5 @@ $ git show ready4analysis -commit 5081206e✂SHA1 +commit ca0c7477✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -7,10 +7,10 @@ Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/code/script.py b/code/script.py new file mode 100644 -index 0000000..4f5833b +index 0000000..c7a6ea9 --- /dev/null +++ b/code/script.py -@@ -0,0 +1,42 @@ +@@ -0,0 +1,43 @@ + +import argparse +import pandas as pd diff --git a/docs/basics/_examples/DL-101-130-111 b/docs/basics/_examples/DL-101-130-111 index cc5119a5c..7101c9db7 100644 --- a/docs/basics/_examples/DL-101-130-111 +++ b/docs/basics/_examples/DL-101-130-111 @@ -6,8 +6,6 @@ $ datalad run -m "analyze iris data with classification analysis" \ [INFO] Making sure inputs are available (this may take some time) get(ok): input/iris.csv (file) [from web...] [INFO] == Command start (output follows) ===== -VIRTUALENV/lib/python3.8/site-packages/seaborn/axisgrid.py:118: UserWarning: The figure layout has changed to tight - self._figure.tight_layout(*args, **kwargs) [INFO] == Command exit (modification check follows) ===== run(ok): /home/me/dl-101/DataLad-101/midterm_project (dataset) [python3 code/script.py input/iris.csv pa...] add(ok): pairwise_relationships.png (file) diff --git a/docs/basics/_examples/DL-101-130-112 b/docs/basics/_examples/DL-101-130-112 index 8675e4265..2a666a99a 100644 --- a/docs/basics/_examples/DL-101-130-112 +++ b/docs/basics/_examples/DL-101-130-112 @@ -1,6 +1,6 @@ $ git log --oneline -7469b34 [DATALAD RUNCMD] analyze iris data with classification analysis -5081206 add script for kNN classification and plotting +9aadac7 [DATALAD RUNCMD] analyze iris data with classification analysis +ca0c747 add script for kNN classification and plotting 4f945ed [DATALAD] Added subdataset 18f4a98 Apply YODA dataset setup bf231d5 [DATALAD] new dataset diff --git a/docs/basics/_examples/DL-101-130-115 b/docs/basics/_examples/DL-101-130-115 index ac8ec70eb..9a8fdf769 100644 --- a/docs/basics/_examples/DL-101-130-115 +++ b/docs/basics/_examples/DL-101-130-115 @@ -1,6 +1,3 @@ $ datalad save -m "Provide project description" README.md add(ok): README.md (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-130-118 b/docs/basics/_examples/DL-101-130-118 index e71026d28..ede9e474d 100644 --- a/docs/basics/_examples/DL-101-130-118 +++ b/docs/basics/_examples/DL-101-130-118 @@ -1,17 +1,7 @@ $ datalad push --to github [INFO] Determine push target -[INFO] Push refspecs -[INFO] Transfer data copy(ok): pairwise_relationships.png (file) [to github...] copy(ok): prediction_report.csv (file) [to github...] -[INFO] Update availability information -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start writing objects publish(ok): . (dataset) [refs/heads/git-annex->github:refs/heads/git-annex ✂FROM✂..✂TO✂] publish(ok): . (dataset) [refs/heads/main->github:refs/heads/main [new branch]] [INFO] Finished push of Dataset(/home/me/dl-101/DataLad-101/midterm_project) -action summary: - copy (ok: 2) - publish (ok: 2) diff --git a/docs/basics/_examples/DL-101-130-119 b/docs/basics/_examples/DL-101-130-119 index b8048386f..e1c3eb6bd 100644 --- a/docs/basics/_examples/DL-101-130-119 +++ b/docs/basics/_examples/DL-101-130-119 @@ -1,13 +1,5 @@ $ cd ../../ $ datalad clone "https://github.com/adswa/midtermproject.git" [INFO] Attempting a clone into /home/me/dl-101/midtermproject -[INFO] Attempting to clone from https://github.com/adswa/midtermproject.git to /home/me/dl-101/midtermproject -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start receiving objects -[INFO] Start resolving deltas -[INFO] Completed clone attempts for Dataset(/home/me/dl-101/midtermproject) [INFO] Remote origin not usable by git-annex; setting annex-ignore -[INFO] https://github.com/adswa/midtermproject.git/config download failed: Not Found install(ok): /home/me/dl-101/midtermproject (dataset) diff --git a/docs/basics/_examples/DL-101-130-120 b/docs/basics/_examples/DL-101-130-120 index f714405ee..7cf37d2e8 100644 --- a/docs/basics/_examples/DL-101-130-120 +++ b/docs/basics/_examples/DL-101-130-120 @@ -1,17 +1,6 @@ $ cd midtermproject $ datalad get input/iris.csv [INFO] Attempting a clone into /home/me/dl-101/midtermproject/input -[INFO] Attempting to clone from https://github.com/datalad-handbook/iris_data.git to /home/me/dl-101/midtermproject/input -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start receiving objects -[INFO] Start resolving deltas -[INFO] Completed clone attempts for Dataset(/home/me/dl-101/midtermproject/input) [INFO] Remote origin not usable by git-annex; setting annex-ignore -[INFO] https://github.com/datalad-handbook/iris_data.git/config download failed: Not Found install(ok): /home/me/dl-101/midtermproject/input (dataset) [Installed subdataset in order to get /home/me/dl-101/midtermproject/input/iris.csv] get(ok): input/iris.csv (file) [from web...] -action summary: - get (ok: 1) - install (ok: 1) diff --git a/docs/basics/_examples/DL-101-130-121 b/docs/basics/_examples/DL-101-130-121 index e66dc3cdf..df8709f57 100644 --- a/docs/basics/_examples/DL-101-130-121 +++ b/docs/basics/_examples/DL-101-130-121 @@ -1,5 +1,3 @@ $ datalad get prediction_report.csv pairwise_relationships.png -get(error): prediction_report.csv (file) [not available; (Note that these git remotes have annex-ignore set: origin)] get(error): pairwise_relationships.png (file) [not available; (Note that these git remotes have annex-ignore set: origin)] -action summary: - get (error: 2) +get(error): prediction_report.csv (file) [not available; (Note that these git remotes have annex-ignore set: origin)] diff --git a/docs/basics/_examples/DL-101-130-122 b/docs/basics/_examples/DL-101-130-122 index 21283647b..6c17b5d01 100644 --- a/docs/basics/_examples/DL-101-130-122 +++ b/docs/basics/_examples/DL-101-130-122 @@ -7,8 +7,6 @@ run.remove(ok): prediction_report.csv (file) [Removed file] [INFO] == Command start (output follows) ===== action summary: get (notneeded: 2) -VIRTUALENV/lib/python3.8/site-packages/seaborn/axisgrid.py:118: UserWarning: The figure layout has changed to tight - self._figure.tight_layout(*args, **kwargs) [INFO] == Command exit (modification check follows) ===== run(ok): /home/me/dl-101/midtermproject (dataset) [python3 code/script.py] add(ok): pairwise_relationships.png (file) diff --git a/docs/basics/_examples/DL-101-132-101 b/docs/basics/_examples/DL-101-132-101 index 9de903070..20489d2d6 100644 --- a/docs/basics/_examples/DL-101-132-101 +++ b/docs/basics/_examples/DL-101-132-101 @@ -1,7 +1,7 @@ $ git log --oneline -1ffc282 Provide project description -7469b34 [DATALAD RUNCMD] analyze iris data with classification analysis -5081206 add script for kNN classification and plotting +6fc0d0f Provide project description +9aadac7 [DATALAD RUNCMD] analyze iris data with classification analysis +ca0c747 add script for kNN classification and plotting 4f945ed [DATALAD] Added subdataset 18f4a98 Apply YODA dataset setup bf231d5 [DATALAD] new dataset diff --git a/docs/basics/_examples/DL-101-132-108a b/docs/basics/_examples/DL-101-132-108a index d5bd7a22a..8d5b13987 100644 --- a/docs/basics/_examples/DL-101-132-108a +++ b/docs/basics/_examples/DL-101-132-108a @@ -1,10 +1,10 @@ $ datalad -f json_pp status -d . midterm_project { "action": "status", - "gitshasum": "209997cc✂SHA1", + "gitshasum": "6fc0d0f5✂SHA1", "parentds": "/home/me/dl-101/DataLad-101", "path": "/home/me/dl-101/DataLad-101/midterm_project", - "prev_gitshasum": "85e526a9✂SHA1", + "prev_gitshasum": "18f4a981✂SHA1", "refds": "/home/me/dl-101/DataLad-101", "state": "modified", "status": "ok", diff --git a/docs/basics/_examples/DL-101-132-110 b/docs/basics/_examples/DL-101-132-110 index e3fd3fc71..c480a1308 100644 --- a/docs/basics/_examples/DL-101-132-110 +++ b/docs/basics/_examples/DL-101-132-110 @@ -2,6 +2,3 @@ $ datalad save -d . -m "finished my midterm project" midterm_project add(ok): midterm_project (dataset) add(ok): .gitmodules (file) save(ok): . (dataset) -action summary: - add (ok: 2) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-132-112 b/docs/basics/_examples/DL-101-132-112 index 77e87c150..13f15d348 100644 --- a/docs/basics/_examples/DL-101-132-112 +++ b/docs/basics/_examples/DL-101-132-112 @@ -1,14 +1,14 @@ $ git log -p -n 1 -commit bfcdc773✂SHA1 +commit c5c90178✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 finished my midterm project diff --git a/midterm_project b/midterm_project -index 18f4a98..1ffc282 160000 +index 18f4a98..6fc0d0f 160000 --- a/midterm_project +++ b/midterm_project @@ -1 +1 @@ -Subproject commit 18f4a981✂SHA1 -+Subproject commit 1ffc2821✂SHA1 ++Subproject commit 6fc0d0f5✂SHA1 diff --git a/docs/basics/_examples/DL-101-133-101 b/docs/basics/_examples/DL-101-133-101 index 321cf7c9e..add09aef1 100644 --- a/docs/basics/_examples/DL-101-133-101 +++ b/docs/basics/_examples/DL-101-133-101 @@ -3,13 +3,6 @@ $ datalad containers-add midterm-software --url shub://adswa/resources:2 [INFO] Initializing special remote datalad add(ok): .datalad/config (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) add(ok): .datalad/config (file) save(ok): . (dataset) containers_add(ok): /home/me/dl-101/DataLad-101/midterm_project/.datalad/environments/midterm-software/image (file) -action summary: - add (ok: 1) - containers_add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-133-103 b/docs/basics/_examples/DL-101-133-103 index 93fa4a830..8546fa4e6 100644 --- a/docs/basics/_examples/DL-101-133-103 +++ b/docs/basics/_examples/DL-101-133-103 @@ -1,5 +1,5 @@ $ git log -n 1 -p -commit 537f5815✂SHA1 +commit 54aad5de✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-133-104 b/docs/basics/_examples/DL-101-133-104 index 3569b3ce4..b7fe0aeaf 100644 --- a/docs/basics/_examples/DL-101-133-104 +++ b/docs/basics/_examples/DL-101-133-104 @@ -2,6 +2,3 @@ $ git config -f .datalad/config datalad.containers.midterm-software.cmdexec 'sin $ datalad save -m "Modify the container call format to bind-mount the working directory" add(ok): .datalad/config (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-133-111 b/docs/basics/_examples/DL-101-133-111 index d120cc26f..8d5c7027b 100644 --- a/docs/basics/_examples/DL-101-133-111 +++ b/docs/basics/_examples/DL-101-133-111 @@ -1,5 +1,5 @@ $ git log -p -n 1 -commit 264f46ee✂SHA1 +commit 4f00ad07✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -26,11 +26,11 @@ Date: Tue Jun 18 16:13:00 2019 +0000 ^^^ Do not change lines above ^^^ diff --git a/pairwise_relationships.png b/pairwise_relationships.png -index d1a536a..963d5a8 120000 +index a24e6b9..963d5a8 120000 --- a/pairwise_relationships.png +++ b/pairwise_relationships.png @@ -1 +1 @@ --.git/annex/objects/gX/Mf/✂/MD5E-s260804--b017ecdb✂MD5.png +-.git/annex/objects/G3/Mg/✂/MD5E-s260649--127313ad✂MD5.png \ No newline at end of file +.git/annex/objects/q1/gp/✂/MD5E-s261062--025dc493✂MD5.png \ No newline at end of file diff --git a/docs/basics/_examples/DL-101-133-113 b/docs/basics/_examples/DL-101-133-113 index f895aab76..316575743 100644 --- a/docs/basics/_examples/DL-101-133-113 +++ b/docs/basics/_examples/DL-101-133-113 @@ -2,6 +2,3 @@ $ datalad save -d . -m "add container and execute analysis within container" mid add(ok): midterm_project (dataset) add(ok): .gitmodules (file) save(ok): . (dataset) -action summary: - add (ok: 2) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-135-102 b/docs/basics/_examples/DL-101-135-102 index b6d8d6f4f..5087434e4 100644 --- a/docs/basics/_examples/DL-101-135-102 +++ b/docs/basics/_examples/DL-101-135-102 @@ -12,44 +12,44 @@ $ datalad wtf ## dataset - branches: - git-annex@✂GITSHA✂ - - master@442a384 - - sct_computational_reproducibility@442a384 + - main@39e55c8 + - sct_computational_reproducibility@39e55c8 - sct_create_a_dataset@e0ff3a7 - - sct_datalad_rerun@4009576 - - sct_input_and_output@a4044db - - sct_install_datasets@fa63a08 - - sct_keeping_track@f4f3039 - - sct_looking_without_touching@afa2884 - - sct_modify_content@9783a90 - - sct_more_on_DYI_configurations@b21ea30 - - sct_more_on_dataset_nesting@b4e773b - - sct_networking@b232c62 - - sct_populate_a_dataset@bcb0ffe - - sct_retrace_and_reenact@26595f2 - - sct_stay_up_to_date@81bf4d3 - - sct_where_is_waldo@26595f2 - - sct_yoda_project@6134fb1 + - sct_datalad_rerun@4b7a0a0 + - sct_input_and_output@d0c060f + - sct_install_datasets@87609a3 + - sct_keeping_track@e37c9fc + - sct_looking_without_touching@1e73592 + - sct_modify_content@e310b46 + - sct_more_on_DYI_configurations@c2400da + - sct_more_on_dataset_nesting@c5c9017 + - sct_networking@e202e94 + - sct_populate_a_dataset@59ac8d3 + - sct_retrace_and_reenact@adb4b5d + - sct_stay_up_to_date@4bb5d39 + - sct_where_is_waldo@adb4b5d + - sct_yoda_project@0edd3ea - id: e3e70682-c209-4cac-629f-6fbed82c07cd - path: /home/me/dl-101/DataLad-101 - repo: AnnexRepo ## dependencies - - annexremote: 1.6.0 + - annexremote: 1.6.4 - boto: 2.49.0 - cmd:7z: 16.02 - - cmd:annex: 10.20230627-g85aadcfa1 + - cmd:annex: 10.20230926-g44a7b4c9✂SHA1 - cmd:bundled-git: UNKNOWN - cmd:git: 2.40.1 - cmd:ssh: 8.2p1 - cmd:system-git: 2.40.1 - cmd:system-ssh: 8.2p1 - - git: 3.1.32 - - gitdb: 4.0.10 - - humanize: 4.7.0 - - iso8601: 2.0.0 + - git: 3.1.40 + - gitdb: 4.0.11 + - humanize: 4.8.0 + - iso8601: 2.1.0 - keyring: 24.2.0 - keyrings.alt: 5.0.0 - - msgpack: 1.0.5 - - platformdirs: 3.10.0 + - msgpack: 1.0.7 + - platformdirs: 3.11.0 - requests: 2.31.0 ## environment - GIT_AUTHOR_DATE: 2019-06-18T16:13:00 @@ -67,14 +67,68 @@ $ datalad wtf - catalog: - description: DataLad Catalog command suite - entrypoints: + - datalad_catalog.add.Add: + - class: Add + - module: datalad_catalog.add + - names: + - catalog-add + - catalog_add - datalad_catalog.catalog.Catalog: - class: Catalog - module: datalad_catalog.catalog - names: - catalog - catalog + - datalad_catalog.create.Create: + - class: Create + - module: datalad_catalog.create + - names: + - catalog-create + - catalog_create + - datalad_catalog.get.Get: + - class: Get + - module: datalad_catalog.get + - names: + - catalog-get + - catalog_get + - datalad_catalog.remove.Remove: + - class: Remove + - module: datalad_catalog.remove + - names: + - catalog-remove + - catalog_remove + - datalad_catalog.serve.Serve: + - class: Serve + - module: datalad_catalog.serve + - names: + - catalog-serve + - catalog_serve + - datalad_catalog.set.Set: + - class: Set + - module: datalad_catalog.set + - names: + - catalog-set + - catalog_set + - datalad_catalog.translate.MetaTranslate: + - class: MetaTranslate + - module: datalad_catalog.translate + - names: + - catalog-translate + - catalog_translate + - datalad_catalog.validate.Validate: + - class: Validate + - module: datalad_catalog.validate + - names: + - catalog-validate + - catalog_validate + - datalad_catalog.workflow.Workflow: + - class: Workflow + - module: datalad_catalog.workflow + - names: + - catalog-workflow + - catalog_workflow - module: datalad_catalog - - version: v0.2.2 + - version: v1.0.1 - container: - description: Containerized environments - entrypoints: @@ -103,7 +157,7 @@ $ datalad wtf - containers-run - containers_run - module: datalad_container - - version: 1.2.2 + - version: 1.2.3 - deprecated: - description: Deprecated functionality - entrypoints: @@ -181,7 +235,36 @@ $ datalad wtf - meta-filter - meta_filter - module: datalad_metalad - - version: 0.4.17 + - version: 0.4.18 + - next: + - description: What is next in DataLad + - entrypoints: + - datalad_next.commands.create_sibling_webdav.CreateSiblingWebDAV: + - class: CreateSiblingWebDAV + - module: datalad_next.commands.create_sibling_webdav + - names: + - create-sibling-webdav + - datalad_next.commands.credentials.Credentials: + - class: Credentials + - module: datalad_next.commands.credentials + - names: + - datalad_next.commands.download.Download: + - class: Download + - module: datalad_next.commands.download + - names: + - download + - datalad_next.commands.ls_file_collection.LsFileCollection: + - class: LsFileCollection + - module: datalad_next.commands.ls_file_collection + - names: + - ls-file-collection + - datalad_next.commands.tree.TreeCommand: + - class: TreeCommand + - module: datalad_next.commands.tree + - names: + - tree + - module: datalad_next + - version: 1.0.2 ## git-annex - build flags: - Assistant @@ -200,7 +283,7 @@ $ datalad wtf - dependency versions: - aws-0.22.1 - bloomfilter-2.0.1.0 - - cryptonite-0.29 + - crypton-0.33 - DAV-1.3.4 - feed-1.3.2.1 - ghc-9.0.2 @@ -297,126 +380,118 @@ $ datalad wtf - 8 - 9 - 10 - - version: 10.20230627-g85aadcfa1 + - version: 10.20230926-g44a7b4c9✂SHA1 ## location - path: /home/me/dl-101/DataLad-101 - type: dataset ## metadata.extractors - annex: - - distribution: datalad-metalad 0.4.17 - - generation: 2 - - module: datalad_metalad.extractors.legacy.annex + - distribution: datalad-deprecated 0.3.0 + - module: datalad_deprecated.metadata.extractors.annex - audio: - - distribution: datalad-metalad 0.4.17 - - generation: 2 - - module: datalad_metalad.extractors.legacy.audio + - distribution: datalad-deprecated 0.3.0 + - module: datalad_deprecated.metadata.extractors.audio - container_inspect: - - distribution: datalad-container 1.2.2 + - distribution: datalad-container 1.2.3 - doc: Populates metadata singularity/apptainer version and `inspect` output. - generation: 4 - load_error: TypeError(get_version() takes 0 positional arguments but 1 was given) - module: datalad_container.extractors.metalad_container - datacite: - - distribution: datalad-metalad 0.4.17 - - generation: 2 - - module: datalad_metalad.extractors.legacy.datacite + - distribution: datalad-deprecated 0.3.0 + - module: datalad_deprecated.metadata.extractors.datacite - datacite_gin: - - distribution: datalad-catalog 0.2.2 + - distribution: datalad-catalog 1.0.1 - doc: Inherits from metalad's DatasetMetadataExtractor class - generation: 4 - module: datalad_catalog.extractors.datacite_gin - version: 0.0.1 - datalad_core: - - distribution: datalad-metalad 0.4.17 - - generation: 2 - - module: datalad_metalad.extractors.legacy.datalad_core + - distribution: datalad-deprecated 0.3.0 + - module: datalad_deprecated.metadata.extractors.datalad_core - datalad_rfc822: - - distribution: datalad-metalad 0.4.17 - - generation: 2 - - module: datalad_metalad.extractors.legacy.datalad_rfc822 + - distribution: datalad-deprecated 0.3.0 + - module: datalad_deprecated.metadata.extractors.datalad_rfc822 - exif: - - distribution: datalad-metalad 0.4.17 - - generation: 2 - - module: datalad_metalad.extractors.legacy.exif + - distribution: datalad-deprecated 0.3.0 + - module: datalad_deprecated.metadata.extractors.exif - external_dataset: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - generation: 4 - module: datalad_metalad.extractors.external_dataset - external_file: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - generation: 4 - module: datalad_metalad.extractors.external_file - frictionless_datapackage: - - distribution: datalad-metalad 0.4.17 - - generation: 2 - - module: datalad_metalad.extractors.legacy.frictionless_datapackage + - distribution: datalad-deprecated 0.3.0 + - module: datalad_deprecated.metadata.extractors.frictionless_datapackage - image: - - distribution: datalad-metalad 0.4.17 - - generation: 2 - - module: datalad_metalad.extractors.legacy.image + - distribution: datalad-deprecated 0.3.0 + - module: datalad_deprecated.metadata.extractors.image - metalad_annex: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - generation: 3 - module: datalad_metalad.extractors.annex - metalad_core: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - generation: 3 - module: datalad_metalad.extractors.core - metalad_custom: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - generation: 3 - module: datalad_metalad.extractors.custom - metalad_example_dataset: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - generation: 4 - module: datalad_metalad.extractors.metalad_example_dataset - version: 0.0.1 - metalad_example_file: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - generation: 4 - module: datalad_metalad.extractors.metalad_example_file - version: 0.0.1 - metalad_external_dataset: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - generation: 4 - module: datalad_metalad.extractors.external_dataset - metalad_external_file: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - generation: 4 - module: datalad_metalad.extractors.external_file - metalad_genericjson_dataset: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - doc: Generic JSON dataset-level extractor class Inherits from metalad's DatasetMetadataExtractor class - generation: 4 - module: datalad_metalad.extractors.genericjson_dataset - version: 0.0.1 - metalad_genericjson_file: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - doc: Main 'custom' file-level extractor class Inherits from metalad's FileMetadataExtractor class - generation: 4 - module: datalad_metalad.extractors.genericjson_file - version: 0.0.1 - metalad_runprov: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - generation: 3 - module: datalad_metalad.extractors.runprov - metalad_studyminimeta: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - generation: 3 - module: datalad_metalad.extractors.studyminimeta.main - xmp: - - distribution: datalad-metalad 0.4.17 - - load_error: ExempiLoadError(Exempi library not found.) - - module: datalad_metalad.extractors.legacy.xmp + - distribution: datalad-deprecated 0.3.0 + - load_error: ImportError(libxmp is not usable due to Exempi library not found.) + - module: datalad_deprecated.metadata.extractors.xmp ## metadata.filters - metalad_demofilter: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - doc: Create a "histogram"-like summary of the key values of all specified name_tuple across all metadata that is yielded by the metadata iterables. Histograms bins are determined by the metadata format and "name" within the format. The "name" is a flattened JSON key hierarchy. The set of metadata yielded by the iterables is determined by the metadata urls and the recursion flag that are passed to "datalad meta-filter". - module: datalad_metalad.filters.demofilter - version: 1.0 ## metadata.indexers - metalad_studyminimeta: - - distribution: datalad-metalad 0.4.17 + - distribution: datalad-metalad 0.4.18 - doc: Indexer for metadata that was extracted from studyminimeta metadata (usually contained in ".studyminimeta.yaml"-files). - module: datalad_metalad.indexers.studyminimeta ## python @@ -446,6 +521,6 @@ $ datalad wtf - type: ext4 - max_path_length: 283 - name: Linux - - release: 5.15.0-1034-azure + - release: 5.15.0-1042-azure - type: posix - - version: #41~20.04.1-Ubuntu SMP Sat Feb 11 17:02:42 UTC 2023 + - version: #49~20.04.1-Ubuntu SMP Wed Jul 12 12:44:56 UTC 2023 diff --git a/docs/basics/_examples/DL-101-136-101 b/docs/basics/_examples/DL-101-136-101 index e80e526a1..21fff222b 100644 --- a/docs/basics/_examples/DL-101-136-101 +++ b/docs/basics/_examples/DL-101-136-101 @@ -3,6 +3,6 @@ $ mv TLCL.pdf The_Linux_Command_Line.pdf $ ls -lh The_Linux_Command_Line.pdf total 16K lrwxrwxrwx 1 elena elena 131 2019-06-18 16:13 bash_guide.pdf -> ../.git/annex/objects/WF/Gq/✂/MD5E-s1198170--0ab2c121✂MD5.pdf -lrwxrwxrwx 1 elena elena 131 2019-06-18 16:13 byte-of-python.pdf -> ../.git/annex/objects/P5/qK/✂/MD5E-s2693891--e61afe4b✂MD5.pdf +lrwxrwxrwx 1 elena elena 131 2019-06-18 16:13 byte-of-python.pdf -> ../.git/annex/objects/xF/42/✂/MD5E-s4161086--c832fc13✂MD5.pdf lrwxrwxrwx 1 elena elena 133 2019-06-18 16:13 progit.pdf -> ../.git/annex/objects/G6/Gj/✂/MD5E-s12465653--05cd7ed5✂MD5.pdf lrwxrwxrwx 1 elena elena 131 2019-06-18 16:13 The_Linux_Command_Line.pdf -> ../.git/annex/objects/jf/3M/✂/MD5E-s2120211--06d1efcb✂MD5.pdf diff --git a/docs/basics/_examples/DL-101-136-103 b/docs/basics/_examples/DL-101-136-103 index 7eba712de..6bbe720f5 100644 --- a/docs/basics/_examples/DL-101-136-103 +++ b/docs/basics/_examples/DL-101-136-103 @@ -2,7 +2,3 @@ $ datalad save -m "rename the book" delete(ok): books/TLCL.pdf (symlink) add(ok): books/The_Linux_Command_Line.pdf (file) save(ok): . (dataset) -action summary: - add (ok: 1) - delete (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-136-104 b/docs/basics/_examples/DL-101-136-104 index 8a2bb94a8..5176185be 100644 --- a/docs/basics/_examples/DL-101-136-104 +++ b/docs/basics/_examples/DL-101-136-104 @@ -1,5 +1,5 @@ $ git log -n 1 -p -commit 6d1d9bc3✂SHA1 +commit d05e0ded✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-136-105 b/docs/basics/_examples/DL-101-136-105 index a61b2961e..e248ad745 100644 --- a/docs/basics/_examples/DL-101-136-105 +++ b/docs/basics/_examples/DL-101-136-105 @@ -1,4 +1,4 @@ $ git reset --hard HEAD~1 $ datalad status -HEAD is now at 88db2a0 add container and execute analysis within container +HEAD is now at 39e55c8 add container and execute analysis within container nothing to save, working tree clean diff --git a/docs/basics/_examples/DL-101-136-109 b/docs/basics/_examples/DL-101-136-109 index 483910c6b..7dd3171f5 100644 --- a/docs/basics/_examples/DL-101-136-109 +++ b/docs/basics/_examples/DL-101-136-109 @@ -1,4 +1,4 @@ $ git commit -m "rename book" -[main ee16aca] rename book +[main 515fcc2] rename book 1 file changed, 0 insertions(+), 0 deletions(-) rename books/{TLCL.pdf => The_Linux_Command_Line.pdf} (100%) diff --git a/docs/basics/_examples/DL-101-136-110 b/docs/basics/_examples/DL-101-136-110 index a61b2961e..e248ad745 100644 --- a/docs/basics/_examples/DL-101-136-110 +++ b/docs/basics/_examples/DL-101-136-110 @@ -1,4 +1,4 @@ $ git reset --hard HEAD~1 $ datalad status -HEAD is now at 88db2a0 add container and execute analysis within container +HEAD is now at 39e55c8 add container and execute analysis within container nothing to save, working tree clean diff --git a/docs/basics/_examples/DL-101-136-122 b/docs/basics/_examples/DL-101-136-122 index de1ea725a..31114f0a9 100644 --- a/docs/basics/_examples/DL-101-136-122 +++ b/docs/basics/_examples/DL-101-136-122 @@ -3,8 +3,4 @@ $ ls -l TLCL.pdf delete(ok): books/TLCL.pdf (symlink) add(ok): TLCL.pdf (file) save(ok): . (dataset) -action summary: - add (ok: 1) - delete (ok: 1) - save (ok: 1) lrwxrwxrwx 1 elena elena 128 2019-06-18 16:13 TLCL.pdf -> .git/annex/objects/jf/3M/✂/MD5E-s2120211--06d1efcb✂MD5.pdf diff --git a/docs/basics/_examples/DL-101-136-123 b/docs/basics/_examples/DL-101-136-123 index 1bbc103b0..810c4c053 100644 --- a/docs/basics/_examples/DL-101-136-123 +++ b/docs/basics/_examples/DL-101-136-123 @@ -1,5 +1,5 @@ $ git log -n 1 -p -commit fc12a6c2✂SHA1 +commit b315f5c4✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-136-124 b/docs/basics/_examples/DL-101-136-124 index 23c0d3e13..6280a149a 100644 --- a/docs/basics/_examples/DL-101-136-124 +++ b/docs/basics/_examples/DL-101-136-124 @@ -1,2 +1,2 @@ $ git reset --hard HEAD~1 -HEAD is now at 88db2a0 add container and execute analysis within container +HEAD is now at 39e55c8 add container and execute analysis within container diff --git a/docs/basics/_examples/DL-101-136-128 b/docs/basics/_examples/DL-101-136-128 index e59a79f68..617831bce 100644 --- a/docs/basics/_examples/DL-101-136-128 +++ b/docs/basics/_examples/DL-101-136-128 @@ -1,6 +1,6 @@ $ cd midterm_project $ git log notes.txt -commit c4701000✂SHA1 +commit 1e273c59✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-136-129 b/docs/basics/_examples/DL-101-136-129 index 309948e79..4e3b21824 100644 --- a/docs/basics/_examples/DL-101-136-129 +++ b/docs/basics/_examples/DL-101-136-129 @@ -4,5 +4,5 @@ $ git reset --hard HEAD~ # in DataLad-101 $ cd ../ $ git reset --hard HEAD~ -HEAD is now at 264f46e [DATALAD RUNCMD] rerun analysis in container -HEAD is now at 88db2a0 add container and execute analysis within container +HEAD is now at 4f00ad0 [DATALAD RUNCMD] rerun analysis in container +HEAD is now at 39e55c8 add container and execute analysis within container diff --git a/docs/basics/_examples/DL-101-136-133 b/docs/basics/_examples/DL-101-136-133 index 6eda7916a..ba4c1a79a 100644 --- a/docs/basics/_examples/DL-101-136-133 +++ b/docs/basics/_examples/DL-101-136-133 @@ -1,5 +1,5 @@ $ git reset --hard HEAD~ $ cd ../ $ git reset --hard HEAD~ -HEAD is now at 264f46e [DATALAD RUNCMD] rerun analysis in container -HEAD is now at 88db2a0 add container and execute analysis within container +HEAD is now at 4f00ad0 [DATALAD RUNCMD] rerun analysis in container +HEAD is now at 39e55c8 add container and execute analysis within container diff --git a/docs/basics/_examples/DL-101-136-141 b/docs/basics/_examples/DL-101-136-141 index 8a4cb194f..36afd8c91 100644 --- a/docs/basics/_examples/DL-101-136-141 +++ b/docs/basics/_examples/DL-101-136-141 @@ -1,6 +1,3 @@ $ datalad save -m "add copy of TLCL.pdf" add(ok): copyofTLCL.pdf (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-136-142 b/docs/basics/_examples/DL-101-136-142 index 0ac74e770..ecc8a9c43 100644 --- a/docs/basics/_examples/DL-101-136-142 +++ b/docs/basics/_examples/DL-101-136-142 @@ -1,5 +1,5 @@ $ git log -n 1 -p -commit fbe4aac9✂SHA1 +commit ebbe6b93✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-136-144 b/docs/basics/_examples/DL-101-136-144 index 3e3e4fc1b..a1a3f24e2 100644 --- a/docs/basics/_examples/DL-101-136-144 +++ b/docs/basics/_examples/DL-101-136-144 @@ -1,2 +1,2 @@ $ git reset --hard HEAD~1 -HEAD is now at a7188cd move book back from midterm_project +HEAD is now at de2d23c move book back from midterm_project diff --git a/docs/basics/_examples/DL-101-136-145 b/docs/basics/_examples/DL-101-136-145 index 200d74345..fecc35796 100644 --- a/docs/basics/_examples/DL-101-136-145 +++ b/docs/basics/_examples/DL-101-136-145 @@ -3,7 +3,3 @@ $ datalad copy-file notes.txt midterm_project -d midterm_project copy_file(ok): /home/me/dl-101/DataLad-101/notes.txt add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - copy_file (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-136-146 b/docs/basics/_examples/DL-101-136-146 index 036537149..facb5ac90 100644 --- a/docs/basics/_examples/DL-101-136-146 +++ b/docs/basics/_examples/DL-101-136-146 @@ -1,6 +1,3 @@ $ datalad copy-file books/bash_guide.pdf midterm_project -d midterm_project copy_file(ok): /home/me/dl-101/DataLad-101/books/bash_guide.pdf [/home/me/dl-101/DataLad-101/midterm_project/bash_guide.pdf] save(ok): . (dataset) -action summary: - copy_file (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-136-147 b/docs/basics/_examples/DL-101-136-147 index abb1793b7..3c758c909 100644 --- a/docs/basics/_examples/DL-101-136-147 +++ b/docs/basics/_examples/DL-101-136-147 @@ -7,7 +7,7 @@ midterm_project │   └── script.py ├── input │   └── iris.csv -> .git/annex/objects/qz/Jg/✂/MD5E-s3975--341a3b52✂MD5.csv -├── notes.txt -> .git/annex/objects/Km/p3/✂/MD5E-s5082--f5d5883f✂MD5.txt +├── notes.txt -> .git/annex/objects/p1/jm/✂/MD5E-s5080--73ec6967✂MD5.txt ├── pairwise_relationships.png -> .git/annex/objects/q1/gp/✂/MD5E-s261062--025dc493✂MD5.png ├── prediction_report.csv -> .git/annex/objects/8q/6M/✂/MD5E-s345--a88cab39✂MD5.csv └── README.md diff --git a/docs/basics/_examples/DL-101-136-149 b/docs/basics/_examples/DL-101-136-149 index f21ea6bbd..34535884a 100644 --- a/docs/basics/_examples/DL-101-136-149 +++ b/docs/basics/_examples/DL-101-136-149 @@ -1,6 +1,6 @@ $ cd midterm_project $ git log notes.txt -commit e43a90dd✂SHA1 +commit 5b8d330f✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-136-150 b/docs/basics/_examples/DL-101-136-150 index aafd9f8b9..b6672d175 100644 --- a/docs/basics/_examples/DL-101-136-150 +++ b/docs/basics/_examples/DL-101-136-150 @@ -1,2 +1,2 @@ $ git reset --hard HEAD~2 -HEAD is now at ccbba1e move book back from midterm_project +HEAD is now at b2b6855 move book back from midterm_project diff --git a/docs/basics/_examples/DL-101-136-152 b/docs/basics/_examples/DL-101-136-152 index 48663d9c8..945f691bc 100644 --- a/docs/basics/_examples/DL-101-136-152 +++ b/docs/basics/_examples/DL-101-136-152 @@ -8,7 +8,3 @@ add(ok): readings/bash_guide.pdf (file) add(ok): readings/byte-of-python.pdf (file) add(ok): readings/progit.pdf (file) save(ok): . (dataset) -action summary: - add (ok: 4) - delete (ok: 4) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-136-153 b/docs/basics/_examples/DL-101-136-153 index 3e3e4fc1b..a1a3f24e2 100644 --- a/docs/basics/_examples/DL-101-136-153 +++ b/docs/basics/_examples/DL-101-136-153 @@ -1,2 +1,2 @@ $ git reset --hard HEAD~1 -HEAD is now at a7188cd move book back from midterm_project +HEAD is now at de2d23c move book back from midterm_project diff --git a/docs/basics/_examples/DL-101-136-155 b/docs/basics/_examples/DL-101-136-155 index 11e38aa1f..2ec83f7fa 100644 --- a/docs/basics/_examples/DL-101-136-155 +++ b/docs/basics/_examples/DL-101-136-155 @@ -3,7 +3,3 @@ delete(ok): recordings/longnow (dataset) add(ok): longnow (dataset) add(ok): .gitmodules (file) save(ok): . (dataset) -action summary: - add (ok: 2) - delete (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-136-157 b/docs/basics/_examples/DL-101-136-157 index 67af87417..c94edeeff 100644 --- a/docs/basics/_examples/DL-101-136-157 +++ b/docs/basics/_examples/DL-101-136-157 @@ -1,3 +1,3 @@ $ git reset --hard HEAD~1 warning: unable to rmdir 'longnow': Directory not empty -HEAD is now at a7188cd move book back from midterm_project +HEAD is now at de2d23c move book back from midterm_project diff --git a/docs/basics/_examples/DL-101-136-168 b/docs/basics/_examples/DL-101-136-168 index f0930a9a1..a7a213c59 100644 --- a/docs/basics/_examples/DL-101-136-168 +++ b/docs/basics/_examples/DL-101-136-168 @@ -1,5 +1,5 @@ $ git log -p -n 1 -commit a7188cde✂SHA1 +commit de2d23c8✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 @@ -14,9 +14,9 @@ index 0000000..4c84b61 +../.git/annex/objects/jf/3M/✂/MD5E-s2120211--06d1efcb✂MD5.pdf \ No newline at end of file diff --git a/midterm_project b/midterm_project -index cbfdcb5..ccbba1e 160000 +index 4698466..b2b6855 160000 --- a/midterm_project +++ b/midterm_project @@ -1 +1 @@ --Subproject commit cbfdcb5d✂SHA1 -+Subproject commit ccbba1ec✂SHA1 +-Subproject commit 46984663✂SHA1 ++Subproject commit b2b68556✂SHA1 diff --git a/docs/basics/_examples/DL-101-136-169 b/docs/basics/_examples/DL-101-136-169 index 99dadcf93..629465d0e 100644 --- a/docs/basics/_examples/DL-101-136-169 +++ b/docs/basics/_examples/DL-101-136-169 @@ -2,6 +2,3 @@ $ datalad save --to-git -m "save cropped logos to Git" recordings/*jpg add(ok): recordings/interval_logo_small.jpg (file) add(ok): recordings/salt_logo_small.jpg (file) save(ok): . (dataset) -action summary: - add (ok: 2) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-136-170 b/docs/basics/_examples/DL-101-136-170 index 1f7bfccae..65ddc776d 100644 --- a/docs/basics/_examples/DL-101-136-170 +++ b/docs/basics/_examples/DL-101-136-170 @@ -7,8 +7,4 @@ $ ls -l flowers.jpg download_url(ok): /home/me/dl-101/DataLad-101/flowers.jpg (file) add(ok): flowers.jpg (file) save(ok): . (dataset) -action summary: - add (ok: 1) - download_url (ok: 1) - save (ok: 1) lrwxrwxrwx 1 elena elena 128 2019-06-18 16:13 2013 flowers.jpg -> .git/annex/objects/7q/9Z/✂/MD5E-s4487679--3898ef0e✂MD5.jpg diff --git a/docs/basics/_examples/DL-101-136-173 b/docs/basics/_examples/DL-101-136-173 index 253ba0fdd..633a9b1bf 100644 --- a/docs/basics/_examples/DL-101-136-173 +++ b/docs/basics/_examples/DL-101-136-173 @@ -1,6 +1,3 @@ $ datalad save -m "removed file again" delete(ok): flowers.jpg (symlink) save(ok): . (dataset) -action summary: - delete (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-136-174 b/docs/basics/_examples/DL-101-136-174 index fb5cb42da..a79865673 100644 --- a/docs/basics/_examples/DL-101-136-174 +++ b/docs/basics/_examples/DL-101-136-174 @@ -1,6 +1,6 @@ $ git reset --hard HEAD~1 $ ls -HEAD is now at 06f5f47 Added flower mosaic from wikimedia +HEAD is now at 682d11f Added flower mosaic from wikimedia books code flowers.jpg diff --git a/docs/basics/_examples/DL-101-136-177 b/docs/basics/_examples/DL-101-136-177 index 291209a32..79f9420b9 100644 --- a/docs/basics/_examples/DL-101-136-177 +++ b/docs/basics/_examples/DL-101-136-177 @@ -2,6 +2,3 @@ $ dd if=/dev/zero | head -c 18520 > a.pdf $ datalad save -m "add some file" a.pdf add(ok): a.pdf (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-136-180 b/docs/basics/_examples/DL-101-136-180 index 304ee03a1..fed9290ac 100644 --- a/docs/basics/_examples/DL-101-136-180 +++ b/docs/basics/_examples/DL-101-136-180 @@ -1,2 +1,2 @@ $ git reset --hard HEAD~2 -HEAD is now at 650c95c save cropped logos to Git +HEAD is now at c278f6a save cropped logos to Git diff --git a/docs/basics/_examples/DL-101-136-181 b/docs/basics/_examples/DL-101-136-181 index 083a0d9a1..0f9104dbc 100644 --- a/docs/basics/_examples/DL-101-136-181 +++ b/docs/basics/_examples/DL-101-136-181 @@ -3,20 +3,10 @@ $ datalad clone -d . \ https://github.com/datalad-datasets/disneyanimation-cloud.git \ cloud [INFO] Attempting a clone into /home/me/dl-101/DataLad-101/cloud -[INFO] Attempting to clone from https://github.com/datalad-datasets/disneyanimation-cloud.git to /home/me/dl-101/DataLad-101/cloud -[INFO] Start enumerating objects -[INFO] Start receiving objects -[INFO] Start resolving deltas -[INFO] Completed clone attempts for Dataset(/home/me/dl-101/DataLad-101/cloud) [INFO] Remote origin not usable by git-annex; setting annex-ignore -[INFO] https://github.com/datalad-datasets/disneyanimation-cloud.git/config download failed: Not Found install(ok): cloud (dataset) add(ok): cloud (dataset) add(ok): .gitmodules (file) save(ok): . (dataset) add(ok): .gitmodules (file) save(ok): . (dataset) -action summary: - add (ok: 3) - install (ok: 1) - save (ok: 2) diff --git a/docs/basics/_examples/DL-101-136-183 b/docs/basics/_examples/DL-101-136-183 index 624265dd4..446424376 100644 --- a/docs/basics/_examples/DL-101-136-183 +++ b/docs/basics/_examples/DL-101-136-183 @@ -1,10 +1,4 @@ $ datalad get -n cloud [INFO] Attempting a clone into /home/me/dl-101/DataLad-101/cloud -[INFO] Attempting to clone from https://github.com/datalad-datasets/disneyanimation-cloud.git to /home/me/dl-101/DataLad-101/cloud -[INFO] Start enumerating objects -[INFO] Start receiving objects -[INFO] Start resolving deltas -[INFO] Completed clone attempts for Dataset(/home/me/dl-101/DataLad-101/cloud) [INFO] Remote origin not usable by git-annex; setting annex-ignore -[INFO] https://github.com/datalad-datasets/disneyanimation-cloud.git/config download failed: Not Found install(ok): /home/me/dl-101/DataLad-101/cloud (dataset) [Installed subdataset in order to get /home/me/dl-101/DataLad-101/cloud] diff --git a/docs/basics/_examples/DL-101-136-184 b/docs/basics/_examples/DL-101-136-184 index ba3181278..9496bb3a7 100644 --- a/docs/basics/_examples/DL-101-136-184 +++ b/docs/basics/_examples/DL-101-136-184 @@ -4,8 +4,3 @@ uninstall(ok): cloud (dataset) remove(ok): cloud (dataset) add(ok): .gitmodules (file) save(ok): . (dataset) -action summary: - add (ok: 1) - remove (ok: 1) - save (ok: 1) - uninstall (ok: 1) diff --git a/docs/basics/_examples/DL-101-137-101 b/docs/basics/_examples/DL-101-137-101 index b8581506d..8f15d62ae 100644 --- a/docs/basics/_examples/DL-101-137-101 +++ b/docs/basics/_examples/DL-101-137-101 @@ -1,16 +1,16 @@ $ git log -15 --oneline -5206254 remove obsolete subds -39948ba [DATALAD] Added subdataset -650c95c save cropped logos to Git -a7188cd move book back from midterm_project -b83cc48 move book into midterm_project -88db2a0 add container and execute analysis within container -bfcdc77 finished my midterm project -6134fb1 [DATALAD] Recorded changes -4be94ca add note on DataLad's procedures -b21ea30 add note on configurations and git config -b232c62 Add note on adding siblings -0fbbe8c Merge remote-tracking branch 'roommate/main' -81bf4d3 add note about datalad update -28a99fb Include nesting demo from datalad website -26595f2 add note on git annex whereis +996f459 remove obsolete subds +15acb2a [DATALAD] Added subdataset +c278f6a save cropped logos to Git +de2d23c move book back from midterm_project +a648756 move book into midterm_project +39e55c8 add container and execute analysis within container +c5c9017 finished my midterm project +0edd3ea [DATALAD] Recorded changes +08684a4 add note on DataLad's procedures +c2400da add note on configurations and git config +e202e94 Add note on adding siblings +6ae8e71 Merge remote-tracking branch 'roommate/main' +4bb5d39 add note about datalad update +5b6e19a Include nesting demo from datalad website +adb4b5d add note on git annex whereis diff --git a/docs/basics/_examples/DL-101-137-104 b/docs/basics/_examples/DL-101-137-104 index 36b1dcbd0..25f36fead 100644 --- a/docs/basics/_examples/DL-101-137-104 +++ b/docs/basics/_examples/DL-101-137-104 @@ -3,6 +3,3 @@ add(ok): Gitjoke1.txt (file) add(ok): Gitjoke2.txt (file) add(ok): Gitjoke3.txt (file) save(ok): . (dataset) -action summary: - add (ok: 3) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-137-105 b/docs/basics/_examples/DL-101-137-105 index d9fa04360..e62e308cd 100644 --- a/docs/basics/_examples/DL-101-137-105 +++ b/docs/basics/_examples/DL-101-137-105 @@ -1,5 +1,5 @@ $ git log -p -1 -commit 88310a7c✂SHA1 +commit 58e40d9a✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-137-106 b/docs/basics/_examples/DL-101-137-106 index 30e7133c7..d366f1f9f 100644 --- a/docs/basics/_examples/DL-101-137-106 +++ b/docs/basics/_examples/DL-101-137-106 @@ -1,4 +1,4 @@ $ git log -n 3 --oneline -88310a7 [DATALAD] Recorded changes -5206254 remove obsolete subds -39948ba [DATALAD] Added subdataset +58e40d9 [DATALAD] Recorded changes +996f459 remove obsolete subds +15acb2a [DATALAD] Added subdataset diff --git a/docs/basics/_examples/DL-101-137-107 b/docs/basics/_examples/DL-101-137-107 index 6ba93aaa9..d45117b9e 100644 --- a/docs/basics/_examples/DL-101-137-107 +++ b/docs/basics/_examples/DL-101-137-107 @@ -1,2 +1,2 @@ -$ git reset --mixed 52062545✂SHA1 +$ git reset --mixed 996f459a✂SHA1 diff --git a/docs/basics/_examples/DL-101-137-108 b/docs/basics/_examples/DL-101-137-108 index a8aac0116..6297a471f 100644 --- a/docs/basics/_examples/DL-101-137-108 +++ b/docs/basics/_examples/DL-101-137-108 @@ -1,3 +1,3 @@ $ git log -n 2 --oneline -5206254 remove obsolete subds -39948ba [DATALAD] Added subdataset +996f459 remove obsolete subds +15acb2a [DATALAD] Added subdataset diff --git a/docs/basics/_examples/DL-101-137-111 b/docs/basics/_examples/DL-101-137-111 index 5d6dd4344..ea8fba97c 100644 --- a/docs/basics/_examples/DL-101-137-111 +++ b/docs/basics/_examples/DL-101-137-111 @@ -1,6 +1,3 @@ $ datalad save -m "save my favorite Git joke" Gitjoke2.txt add(ok): Gitjoke2.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-137-112 b/docs/basics/_examples/DL-101-137-112 index 02be3694b..2b509a04d 100644 --- a/docs/basics/_examples/DL-101-137-112 +++ b/docs/basics/_examples/DL-101-137-112 @@ -1,11 +1,11 @@ $ git log -2 -commit c48923fb✂SHA1 +commit 4bdb06cf✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 save my favorite Git joke -commit 52062545✂SHA1 +commit 996f459a✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-137-113 b/docs/basics/_examples/DL-101-137-113 index 271c8c29d..ceb20ca94 100644 --- a/docs/basics/_examples/DL-101-137-113 +++ b/docs/basics/_examples/DL-101-137-113 @@ -6,6 +6,3 @@ add(ok): Gitjoke1.txt (file) add(ok): Gitjoke3.txt (file) add(ok): apdffile.pdf (file) save(ok): . (dataset) -action summary: - add (ok: 3) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-137-114 b/docs/basics/_examples/DL-101-137-114 index 0c69a18e0..c0cea3fa7 100644 --- a/docs/basics/_examples/DL-101-137-114 +++ b/docs/basics/_examples/DL-101-137-114 @@ -1,2 +1,2 @@ $ ls -l apdffile.pdf -lrwxrwxrwx 1 elena elena 122 2019-06-18 16:13 apdffile.pdf -> .git/annex/objects/4w/78/✂/MD5E-s1216--2a96ec70✂MD5.pdf +lrwxrwxrwx 1 elena elena 122 2019-06-18 16:13 apdffile.pdf -> .git/annex/objects/W8/PK/✂/MD5E-s1216--8bddf647✂MD5.pdf diff --git a/docs/basics/_examples/DL-101-137-117 b/docs/basics/_examples/DL-101-137-117 index ac2288e6c..27d3a0bab 100644 --- a/docs/basics/_examples/DL-101-137-117 +++ b/docs/basics/_examples/DL-101-137-117 @@ -1,4 +1,4 @@ $ git log -n 3 --oneline -2ebdb40 [DATALAD] Recorded changes -c48923f save my favorite Git joke -5206254 remove obsolete subds +98eb974 [DATALAD] Recorded changes +4bdb06c save my favorite Git joke +996f459 remove obsolete subds diff --git a/docs/basics/_examples/DL-101-137-118 b/docs/basics/_examples/DL-101-137-118 index 00f793efa..77aa3942a 100644 --- a/docs/basics/_examples/DL-101-137-118 +++ b/docs/basics/_examples/DL-101-137-118 @@ -1,2 +1,2 @@ -$ git reset --mixed c48923fb✂SHA1 +$ git reset --mixed 4bdb06cf✂SHA1 diff --git a/docs/basics/_examples/DL-101-137-119 b/docs/basics/_examples/DL-101-137-119 index 99da0a741..9f3ac6762 100644 --- a/docs/basics/_examples/DL-101-137-119 +++ b/docs/basics/_examples/DL-101-137-119 @@ -1,3 +1,3 @@ $ git log -n 2 --oneline -c48923f save my favorite Git joke -5206254 remove obsolete subds +4bdb06c save my favorite Git joke +996f459 remove obsolete subds diff --git a/docs/basics/_examples/DL-101-137-121 b/docs/basics/_examples/DL-101-137-121 index e76a1420a..6589293d9 100644 --- a/docs/basics/_examples/DL-101-137-121 +++ b/docs/basics/_examples/DL-101-137-121 @@ -1,21 +1,17 @@ -$ git log -n 20 --oneline -c48923f save my favorite Git joke -5206254 remove obsolete subds -39948ba [DATALAD] Added subdataset -650c95c save cropped logos to Git -a7188cd move book back from midterm_project -b83cc48 move book into midterm_project -88db2a0 add container and execute analysis within container -bfcdc77 finished my midterm project -6134fb1 [DATALAD] Recorded changes -4be94ca add note on DataLad's procedures -b21ea30 add note on configurations and git config -b232c62 Add note on adding siblings -0fbbe8c Merge remote-tracking branch 'roommate/main' -81bf4d3 add note about datalad update -28a99fb Include nesting demo from datalad website -26595f2 add note on git annex whereis -afa2884 add note about cloning from paths and recursive datalad get -b5fc129 add note on clean datasets -d5845d3 [DATALAD RUNCMD] Resize logo for slides -d24531d [DATALAD RUNCMD] Resize logo for slides +$ git log -n 16 --oneline +4bdb06c save my favorite Git joke +996f459 remove obsolete subds +15acb2a [DATALAD] Added subdataset +c278f6a save cropped logos to Git +de2d23c move book back from midterm_project +a648756 move book into midterm_project +39e55c8 add container and execute analysis within container +c5c9017 finished my midterm project +0edd3ea [DATALAD] Recorded changes +08684a4 add note on DataLad's procedures +c2400da add note on configurations and git config +e202e94 Add note on adding siblings +6ae8e71 Merge remote-tracking branch 'roommate/main' +4bb5d39 add note about datalad update +5b6e19a Include nesting demo from datalad website +adb4b5d add note on git annex whereis diff --git a/docs/basics/_examples/DL-101-137-122 b/docs/basics/_examples/DL-101-137-122 index 64e6c878e..9dbd8b51e 100644 --- a/docs/basics/_examples/DL-101-137-122 +++ b/docs/basics/_examples/DL-101-137-122 @@ -1,7 +1,7 @@ -$ git checkout afa2884e✂SHA1 +$ git checkout 1e73592e✂SHA1 warning: unable to rmdir 'midterm_project': Directory not empty -Note: switching to 'afa2884e✂SHA1'. +Note: switching to '1e73592e✂SHA1'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this @@ -18,4 +18,4 @@ Or undo this operation with: Turn off this advice by setting config variable advice.detachedHead to false -HEAD is now at afa2884 add note about cloning from paths and recursive datalad get +HEAD is now at 1e73592 add note about cloning from paths and recursive datalad get diff --git a/docs/basics/_examples/DL-101-137-124 b/docs/basics/_examples/DL-101-137-124 index d51b0bce3..cf7282e88 100644 --- a/docs/basics/_examples/DL-101-137-124 +++ b/docs/basics/_examples/DL-101-137-124 @@ -1,3 +1,3 @@ $ git checkout main -Previous HEAD position was afa2884 add note about cloning from paths and recursive datalad get +Previous HEAD position was 1e73592 add note about cloning from paths and recursive datalad get Switched to branch 'main' diff --git a/docs/basics/_examples/DL-101-137-127 b/docs/basics/_examples/DL-101-137-127 index 9662e0cbe..b95167dc8 100644 --- a/docs/basics/_examples/DL-101-137-127 +++ b/docs/basics/_examples/DL-101-137-127 @@ -1,5 +1,5 @@ -$ git cat-file --textconv afa2884e✂SHA1:notes.txt +$ git cat-file --textconv 1e73592e✂SHA1:notes.txt One can create a new dataset with 'datalad create [--description] PATH'. The dataset is created empty diff --git a/docs/basics/_examples/DL-101-137-131 b/docs/basics/_examples/DL-101-137-131 index 2218281a6..6a75090c2 100644 --- a/docs/basics/_examples/DL-101-137-131 +++ b/docs/basics/_examples/DL-101-137-131 @@ -1,6 +1,3 @@ $ datalad save -m "add joke evaluation to joke" Gitjoke2.txt add(ok): Gitjoke2.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-137-132 b/docs/basics/_examples/DL-101-137-132 index c034e9468..a3b48afd3 100644 --- a/docs/basics/_examples/DL-101-137-132 +++ b/docs/basics/_examples/DL-101-137-132 @@ -1,3 +1,3 @@ $ git log -n 2 --oneline -e22faf1 add joke evaluation to joke -c48923f save my favorite Git joke +a4ab359 add joke evaluation to joke +4bdb06c save my favorite Git joke diff --git a/docs/basics/_examples/DL-101-137-133 b/docs/basics/_examples/DL-101-137-133 index 72142b4ff..16eee22ee 100644 --- a/docs/basics/_examples/DL-101-137-133 +++ b/docs/basics/_examples/DL-101-137-133 @@ -1,3 +1,3 @@ -$ git reset --hard c48923fb✂SHA1 -HEAD is now at c48923f save my favorite Git joke +$ git reset --hard 4bdb06cf✂SHA1 +HEAD is now at 4bdb06c save my favorite Git joke diff --git a/docs/basics/_examples/DL-101-137-141 b/docs/basics/_examples/DL-101-137-141 index eca4d1164..92ab4734c 100644 --- a/docs/basics/_examples/DL-101-137-141 +++ b/docs/basics/_examples/DL-101-137-141 @@ -1,6 +1,3 @@ $ datalad save -m "did a bad modification" Gitjoke2.txt add(ok): Gitjoke2.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-137-143 b/docs/basics/_examples/DL-101-137-143 index 05fce358c..9416c8fac 100644 --- a/docs/basics/_examples/DL-101-137-143 +++ b/docs/basics/_examples/DL-101-137-143 @@ -1,6 +1,3 @@ $ datalad save -m "add note on helpful git resource" notes.txt add(ok): notes.txt (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/basics/_examples/DL-101-137-144 b/docs/basics/_examples/DL-101-137-144 index 482c3bf08..bd0361b52 100644 --- a/docs/basics/_examples/DL-101-137-144 +++ b/docs/basics/_examples/DL-101-137-144 @@ -1,5 +1,5 @@ -$ git revert 73b49af9✂SHA1 -[main 33ad93e] Revert "did a bad modification" +$ git revert 713e79d3✂SHA1 +[main 6d3d93b] Revert "did a bad modification" Date: Tue Jun 18 16:13:00 2019 +0000 1 file changed, 1 deletion(-) diff --git a/docs/basics/_examples/DL-101-137-146 b/docs/basics/_examples/DL-101-137-146 index 96f15f596..2b9ba0314 100644 --- a/docs/basics/_examples/DL-101-137-146 +++ b/docs/basics/_examples/DL-101-137-146 @@ -1,19 +1,19 @@ $ git log -n 3 -commit 33ad93e4✂SHA1 +commit 6d3d93b9✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 Revert "did a bad modification" - This reverts commit 73b49af9✂SHA1. + This reverts commit 713e79d3✂SHA1. -commit 4e8f18ea✂SHA1 +commit 04536a1e✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 add note on helpful git resource -commit 73b49af9✂SHA1 +commit 713e79d3✂SHA1 Author: Elena Piscopia Date: Tue Jun 18 16:13:00 2019 +0000 diff --git a/docs/basics/_examples/DL-101-139-102 b/docs/basics/_examples/DL-101-139-102 index 3d8ecb445..038caea78 100644 --- a/docs/basics/_examples/DL-101-139-102 +++ b/docs/basics/_examples/DL-101-139-102 @@ -1,20 +1,9 @@ $ datalad push --to gin [INFO] Determine push target -[INFO] Push refspecs -[INFO] Transfer data copy(ok): books/TLCL.pdf (file) [to gin...] copy(ok): books/bash_guide.pdf (file) [to gin...] copy(ok): books/byte-of-python.pdf (file) [to gin...] copy(ok): books/progit.pdf (file) [to gin...] -[INFO] Update availability information -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start writing objects -[INFO] Start resolving deltas publish(ok): . (dataset) [refs/heads/git-annex->gin:refs/heads/git-annex ✂FROM✂..✂TO✂] publish(ok): . (dataset) [refs/heads/main->gin:refs/heads/main [new branch]] [INFO] Finished push of Dataset(/home/me/dl-101/DataLad-101) -action summary: - copy (ok: 4) - publish (ok: 2) diff --git a/docs/basics/_examples/DL-101-139-106 b/docs/basics/_examples/DL-101-139-106 index 4605ff36c..d22a45da3 100644 --- a/docs/basics/_examples/DL-101-139-106 +++ b/docs/basics/_examples/DL-101-139-106 @@ -1,13 +1,6 @@ $ datalad push --to gin [INFO] Determine push target -[INFO] Push refspecs -[INFO] Transfer data -[INFO] Update availability information -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start writing objects -publish(ok): . (dataset) [refs/heads/main->gin:refs/heads/main 33ad93e..4191b5f] +publish(ok): . (dataset) [refs/heads/main->gin:refs/heads/main 6d3d93b..344b0ec] [INFO] Finished push of Dataset(/home/me/dl-101/DataLad-101) action summary: publish (notneeded: 1, ok: 1) diff --git a/docs/basics/_examples/DL-101-139-107 b/docs/basics/_examples/DL-101-139-107 index a56411e8d..4fb9280e1 100644 --- a/docs/basics/_examples/DL-101-139-107 +++ b/docs/basics/_examples/DL-101-139-107 @@ -1,10 +1,3 @@ $ datalad clone https://gin.g-node.org/adswa/DataLad-101 [INFO] Attempting a clone into /home/me/dl-101/clone_of_dl-101/DataLad-101 -[INFO] Attempting to clone from https://gin.g-node.org/adswa/DataLad-101 to /home/me/dl-101/clone_of_dl-101/DataLad-101 -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start receiving objects -[INFO] Start resolving deltas -[INFO] Completed clone attempts for Dataset(/home/me/dl-101/clone_of_dl-101/DataLad-101) install(ok): /home/me/dl-101/clone_of_dl-101/DataLad-101 (dataset) diff --git a/docs/basics/_examples/DL-101-141-101 b/docs/basics/_examples/DL-101-141-101 index 2992fad69..e0b0bb945 100644 --- a/docs/basics/_examples/DL-101-141-101 +++ b/docs/basics/_examples/DL-101-141-101 @@ -1,18 +1,10 @@ $ datalad push --to roommate [INFO] Determine push target -[INFO] Push refspecs -[INFO] Transfer data copy(ok): books/TLCL.pdf (file) [to roommate...] copy(ok): books/bash_guide.pdf (file) [to roommate...] copy(ok): books/byte-of-python.pdf (file) [to roommate...] -[INFO] Update availability information -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start writing objects -[INFO] Start resolving deltas [INFO] Finished -publish(ok): . (dataset) [refs/heads/git-annex->roommate:refs/heads/git-annex FROM..TO ✂FROM✂..✂TO✂] +publish(ok): . (dataset) [refs/heads/git-annex->roommate:refs/heads/git-annex ✂FROM✂..✂TO✂] publish(error): . (dataset) [refs/heads/main->roommate:refs/heads/main [remote rejected] (branch is currently checked out)] [INFO] Finished push of Dataset(/home/me/dl-101/DataLad-101) action summary: diff --git a/docs/beyond_basics/_examples/DL-101-147-103 b/docs/beyond_basics/_examples/DL-101-147-103 index a2eaad85d..88cd40438 100644 --- a/docs/beyond_basics/_examples/DL-101-147-103 +++ b/docs/beyond_basics/_examples/DL-101-147-103 @@ -2,13 +2,8 @@ $ datalad create-sibling-ria -s ria-backup --alias dl-101 --new-store-ok "ria+file:///home/me/myriastore" [INFO] Creating a new RIA store at /home/me/myriastore [INFO] create siblings 'ria-backup' and 'ria-backup-storage' ... -[INFO] Fetching updates for Dataset(/home/me/dl-101/DataLad-101) update(ok): . (dataset) update(ok): . (dataset) [INFO] Configure additional publication dependency on "ria-backup-storage" configure-sibling(ok): . (sibling) create-sibling-ria(ok): /home/me/dl-101/DataLad-101 (dataset) -action summary: - configure-sibling (ok: 1) - create-sibling-ria (ok: 1) - update (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-147-104 b/docs/beyond_basics/_examples/DL-101-147-104 index 3319cf236..96edc7f9e 100644 --- a/docs/beyond_basics/_examples/DL-101-147-104 +++ b/docs/beyond_basics/_examples/DL-101-147-104 @@ -1,6 +1,6 @@ $ datalad siblings .: here(+) [git] -.: gin(+) [/home/me/pushes/DataLad-101 (git)] .: ria-backup-storage(+) [ora] -.: ria-backup(-) [/home/me/myriastore/e3e/70682-c209-4cac-629f-6fbed82c07cd (git)] +.: gin(+) [/home/me/pushes/DataLad-101 (git)] .: roommate(+) [../mock_user/DataLad-101 (git)] +.: ria-backup(-) [/home/me/myriastore/e3e/70682-c209-4cac-629f-6fbed82c07cd (git)] diff --git a/docs/beyond_basics/_examples/DL-101-147-107 b/docs/beyond_basics/_examples/DL-101-147-107 index 697c9824d..501574ec4 100644 --- a/docs/beyond_basics/_examples/DL-101-147-107 +++ b/docs/beyond_basics/_examples/DL-101-147-107 @@ -1,24 +1,10 @@ $ datalad push --to ria-backup [INFO] Determine push target -[INFO] Push refspecs -[INFO] Determine push target -[INFO] Push refspecs -[INFO] Transfer data copy(ok): books/TLCL.pdf (file) [to ria-backup-storage...] copy(ok): books/bash_guide.pdf (file) [to ria-backup-storage...] copy(ok): books/byte-of-python.pdf (file) [to ria-backup-storage...] copy(ok): books/progit.pdf (file) [to ria-backup-storage...] -[INFO] Transfer data -[INFO] Update availability information -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start writing objects -[INFO] Start resolving deltas publish(ok): . (dataset) [refs/heads/main->ria-backup:refs/heads/main [new branch]] publish(ok): . (dataset) [refs/heads/git-annex->ria-backup:refs/heads/git-annex [new branch]] [INFO] Finished push of Dataset(/home/me/dl-101/DataLad-101) [INFO] Finished push of Dataset(/home/me/dl-101/DataLad-101) -action summary: - copy (ok: 4) - publish (ok: 2) diff --git a/docs/beyond_basics/_examples/DL-101-147-108 b/docs/beyond_basics/_examples/DL-101-147-108 index db406a736..51eb74326 100644 --- a/docs/beyond_basics/_examples/DL-101-147-108 +++ b/docs/beyond_basics/_examples/DL-101-147-108 @@ -14,14 +14,14 @@ $ tree /home/me/myriastore │   │   │   └── 3M │   │   │   └── MD5E-s2120211--06d1efcb✂MD5.pdf │   │   │   └── MD5E-s2120211--06d1efcb✂MD5.pdf -│   │   ├── P5 -│   │   │   └── qK -│   │   │   └── MD5E-s2693891--e61afe4b✂MD5.pdf -│   │   │   └── MD5E-s2693891--e61afe4b✂MD5.pdf -│   │   └── WF -│   │   └── Gq -│   │   └── MD5E-s1198170--0ab2c121✂MD5.pdf -│   │   └── MD5E-s1198170--0ab2c121✂MD5.pdf +│   │   ├── WF +│   │   │   └── Gq +│   │   │   └── MD5E-s1198170--0ab2c121✂MD5.pdf +│   │   │   └── MD5E-s1198170--0ab2c121✂MD5.pdf +│   │   └── xF +│   │   └── 42 +│   │   └── MD5E-s4161086--c832fc13✂MD5.pdf +│   │   └── MD5E-s4161086--c832fc13✂MD5.pdf │   ├── archives │   ├── branches │   ├── config @@ -47,8 +47,8 @@ $ tree /home/me/myriastore │   ├── objects │   │   ├── info │   │   └── pack -│   │   ├── pack-0c77bdff✂SHA1.idx -│   │   └── pack-0c77bdff✂SHA1.pack +│   │   ├── pack-94b1d055✂SHA1.idx +│   │   └── pack-94b1d055✂SHA1.pack │   ├── ora-remote-46b169aa-bb91-42d6-be06-355d957fb4f7 │   │   └── transfer │   ├── refs diff --git a/docs/beyond_basics/_examples/DL-101-147-109 b/docs/beyond_basics/_examples/DL-101-147-109 index ea8e26d21..576b9d8a0 100644 --- a/docs/beyond_basics/_examples/DL-101-147-109 +++ b/docs/beyond_basics/_examples/DL-101-147-109 @@ -2,13 +2,8 @@ $ cd midterm_project $ datalad create-sibling-ria -s ria-backup ria+file:///home/me/myriastore [INFO] Creating a new RIA store at /home/me/myriastore [INFO] create siblings 'ria-backup' and 'ria-backup-storage' ... -[INFO] Fetching updates for Dataset(/home/me/dl-101/DataLad-101/midterm_project) update(ok): . (dataset) update(ok): . (dataset) [INFO] Configure additional publication dependency on "ria-backup-storage" configure-sibling(ok): . (sibling) create-sibling-ria(ok): /home/me/dl-101/DataLad-101/midterm_project (dataset) -action summary: - configure-sibling (ok: 1) - create-sibling-ria (ok: 1) - update (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-147-110 b/docs/beyond_basics/_examples/DL-101-147-110 index 024982551..0ef0e795d 100644 --- a/docs/beyond_basics/_examples/DL-101-147-110 +++ b/docs/beyond_basics/_examples/DL-101-147-110 @@ -1,23 +1,9 @@ $ datalad push --to ria-backup [INFO] Determine push target -[INFO] Push refspecs -[INFO] Determine push target -[INFO] Push refspecs -[INFO] Transfer data copy(ok): .datalad/environments/midterm-software/image (file) [to ria-backup-storage...] copy(ok): pairwise_relationships.png (file) [to ria-backup-storage...] copy(ok): prediction_report.csv (file) [to ria-backup-storage...] -[INFO] Transfer data -[INFO] Update availability information -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start writing objects -[INFO] Start resolving deltas publish(ok): . (dataset) [refs/heads/main->ria-backup:refs/heads/main [new branch]] publish(ok): . (dataset) [refs/heads/git-annex->ria-backup:refs/heads/git-annex [new branch]] [INFO] Finished push of Dataset(/home/me/dl-101/DataLad-101/midterm_project) [INFO] Finished push of Dataset(/home/me/dl-101/DataLad-101/midterm_project) -action summary: - copy (ok: 3) - publish (ok: 2) diff --git a/docs/beyond_basics/_examples/DL-101-147-112 b/docs/beyond_basics/_examples/DL-101-147-112 index 7a65fd91f..6e79a2cbf 100644 --- a/docs/beyond_basics/_examples/DL-101-147-112 +++ b/docs/beyond_basics/_examples/DL-101-147-112 @@ -43,9 +43,9 @@ $ tree /home/me/myriastore │   ├── objects │   │   ├── info │   │   └── pack -│   │   ├── pack-57578b5f✂SHA1.idx -│   │   └── pack-57578b5f✂SHA1.pack -│   ├── ora-remote-4b80e0df-e4a4-47d4-b59d-8e00641bf193 +│   │   ├── pack-8a336fbd✂SHA1.idx +│   │   └── pack-8a336fbd✂SHA1.pack +│   ├── ora-remote-5762bcab-e464-4ccd-898f-77e45c8dab51 │   │   └── transfer │   ├── refs │   │   ├── heads @@ -65,14 +65,14 @@ $ tree /home/me/myriastore │   │   │   └── 3M │   │   │   └── MD5E-s2120211--06d1efcb✂MD5.pdf │   │   │   └── MD5E-s2120211--06d1efcb✂MD5.pdf -│   │   ├── P5 -│   │   │   └── qK -│   │   │   └── MD5E-s2693891--e61afe4b✂MD5.pdf -│   │   │   └── MD5E-s2693891--e61afe4b✂MD5.pdf -│   │   └── WF -│   │   └── Gq -│   │   └── MD5E-s1198170--0ab2c121✂MD5.pdf -│   │   └── MD5E-s1198170--0ab2c121✂MD5.pdf +│   │   ├── WF +│   │   │   └── Gq +│   │   │   └── MD5E-s1198170--0ab2c121✂MD5.pdf +│   │   │   └── MD5E-s1198170--0ab2c121✂MD5.pdf +│   │   └── xF +│   │   └── 42 +│   │   └── MD5E-s4161086--c832fc13✂MD5.pdf +│   │   └── MD5E-s4161086--c832fc13✂MD5.pdf │   ├── archives │   ├── branches │   ├── config @@ -98,8 +98,8 @@ $ tree /home/me/myriastore │   ├── objects │   │   ├── info │   │   └── pack -│   │   ├── pack-0c77bdff✂SHA1.idx -│   │   └── pack-0c77bdff✂SHA1.pack +│   │   ├── pack-94b1d055✂SHA1.idx +│   │   └── pack-94b1d055✂SHA1.pack │   ├── ora-remote-46b169aa-bb91-42d6-be06-355d957fb4f7 │   │   └── transfer │   ├── refs diff --git a/docs/beyond_basics/_examples/DL-101-147-120 b/docs/beyond_basics/_examples/DL-101-147-120 index 6cabf8c33..76cc00f45 100644 --- a/docs/beyond_basics/_examples/DL-101-147-120 +++ b/docs/beyond_basics/_examples/DL-101-147-120 @@ -1,11 +1,5 @@ $ datalad clone ria+file:///home/me/myriastore#e3e70682-c209-4cac-629f-6fbed82c07cd myclone -[INFO] Attempting a clone into /home/me/beyond_basics/myclone -[INFO] Attempting to clone from file:///home/me/myriastore/e3e/70682-c209-4cac-629f-6fbed82c07cd to /home/me/beyond_basics/myclone -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/myclone) [INFO] Configure additional publication dependency on "ria-backup-storage" configure-sibling(ok): . (sibling) install(ok): /home/me/beyond_basics/myclone (dataset) -action summary: - configure-sibling (ok: 1) - install (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-147-124 b/docs/beyond_basics/_examples/DL-101-147-124 index 8d7b4ce10..e48f08cd3 100644 --- a/docs/beyond_basics/_examples/DL-101-147-124 +++ b/docs/beyond_basics/_examples/DL-101-147-124 @@ -1,10 +1,5 @@ datalad clone ria+file:///home/me/myriastore#~midterm_project [INFO] Attempting a clone into /home/me/beyond_basics/midterm_project -[INFO] Attempting to clone from file:///home/me/myriastore/alias/midterm_project to /home/me/beyond_basics/midterm_project -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/midterm_project) [INFO] Configure additional publication dependency on "ria-backup-storage" configure-sibling(ok): . (sibling) install(ok): /home/me/beyond_basics/midterm_project (dataset) -action summary: - configure-sibling (ok: 1) - install (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-147-125 b/docs/beyond_basics/_examples/DL-101-147-125 index d288be864..0ea9898b3 100644 --- a/docs/beyond_basics/_examples/DL-101-147-125 +++ b/docs/beyond_basics/_examples/DL-101-147-125 @@ -3,7 +3,7 @@ $ tree . ├── books │   ├── bash_guide.pdf -> ../.git/annex/objects/WF/Gq/✂/MD5E-s1198170--0ab2c121✂MD5.pdf -│   ├── byte-of-python.pdf -> ../.git/annex/objects/P5/qK/✂/MD5E-s2693891--e61afe4b✂MD5.pdf +│   ├── byte-of-python.pdf -> ../.git/annex/objects/xF/42/✂/MD5E-s4161086--c832fc13✂MD5.pdf │   ├── progit.pdf -> ../.git/annex/objects/G6/Gj/✂/MD5E-s12465653--05cd7ed5✂MD5.pdf │   └── TLCL.pdf -> ../.git/annex/objects/jf/3M/✂/MD5E-s2120211--06d1efcb✂MD5.pdf ├── code diff --git a/docs/beyond_basics/_examples/DL-101-147-127 b/docs/beyond_basics/_examples/DL-101-147-127 index cd794a7a3..19b895677 100644 --- a/docs/beyond_basics/_examples/DL-101-147-127 +++ b/docs/beyond_basics/_examples/DL-101-147-127 @@ -1,6 +1,4 @@ $ datalad get -n midterm_project [INFO] Attempting a clone into /home/me/beyond_basics/myclone/midterm_project -[INFO] Attempting to clone from file:///home/me/myriastore/d95/bafc8-f2a4-d27b-dcf4-bb99f4bea973 to /home/me/beyond_basics/myclone/midterm_project -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/myclone/midterm_project) [INFO] Configure additional publication dependency on "ria-backup-storage" install(ok): /home/me/beyond_basics/myclone/midterm_project (dataset) [Installed subdataset in order to get /home/me/beyond_basics/myclone/midterm_project] diff --git a/docs/beyond_basics/_examples/DL-101-149-01 b/docs/beyond_basics/_examples/DL-101-149-01 index 36becbcd5..287c3f110 100644 --- a/docs/beyond_basics/_examples/DL-101-149-01 +++ b/docs/beyond_basics/_examples/DL-101-149-01 @@ -1,10 +1,3 @@ $ datalad clone https://github.com/datalad-datasets/human-connectome-project-openaccess.git hcp [INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp -[INFO] Attempting to clone from https://github.com/datalad-datasets/human-connectome-project-openaccess.git to /home/me/beyond_basics/HPC/hcp -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start receiving objects -[INFO] Start resolving deltas -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp) install(ok): /home/me/beyond_basics/HPC/hcp (dataset) diff --git a/docs/beyond_basics/_examples/DL-101-149-02 b/docs/beyond_basics/_examples/DL-101-149-02 index 31f367295..ef8ec44de 100644 --- a/docs/beyond_basics/_examples/DL-101-149-02 +++ b/docs/beyond_basics/_examples/DL-101-149-02 @@ -1,157 +1,48 @@ $ cd hcp $ datalad get -n -r HCP1200/130* [INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130013 -[INFO] Attempting to clone from http://store.datalad.org/78a/4404e-2aa7-11ea-8c3f-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130013 -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130013) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130013 (dataset) [Installed subdataset in order to get /home/me/beyond_basics/HPC/hcp/HCP1200/130013] [INFO] Ensuring presence of Dataset(/home/me/beyond_basics/HPC/hcp) to get /home/me/beyond_basics/HPC/hcp/HCP1200/130013 -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130013/MNINonLinear -[INFO] Attempting to clone from http://store.datalad.org/876/c9c98-2aa7-11ea-85a1-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130013/MNINonLinear -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130013/MNINonLinear) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130013/MNINonLinear (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130013/T1w -[INFO] Attempting to clone from http://store.datalad.org/8b5/6089e-2aa7-11ea-85a1-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130013/T1w -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130013/T1w) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130013/T1w (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130013/unprocessed -[INFO] Attempting to clone from http://store.datalad.org/8e0/91aae-2aa7-11ea-85a1-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130013/unprocessed -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130013/unprocessed) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130013/unprocessed (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130114 -[INFO] Attempting to clone from http://store.datalad.org/9a5/0b340-2aa6-11ea-81a2-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130114 -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130114) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130114 (dataset) [Installed subdataset in order to get /home/me/beyond_basics/HPC/hcp/HCP1200/130114] [INFO] Ensuring presence of Dataset(/home/me/beyond_basics/HPC/hcp) to get /home/me/beyond_basics/HPC/hcp/HCP1200/130114 -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130114/MNINonLinear -[INFO] Attempting to clone from http://store.datalad.org/a71/ab0e4-2aa6-11ea-a248-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130114/MNINonLinear -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130114/MNINonLinear) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130114/MNINonLinear (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130114/T1w -[INFO] Attempting to clone from http://store.datalad.org/aa1/d4284-2aa6-11ea-a248-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130114/T1w -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130114/T1w) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130114/T1w (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130114/unprocessed -[INFO] Attempting to clone from http://store.datalad.org/ac8/7ba5e-2aa6-11ea-a248-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130114/unprocessed -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130114/unprocessed) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130114/unprocessed (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130316 -[INFO] Attempting to clone from http://store.datalad.org/411/a7f1a-38ff-11ea-8d6e-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130316 -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130316) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130316 (dataset) [Installed subdataset in order to get /home/me/beyond_basics/HPC/hcp/HCP1200/130316] [INFO] Ensuring presence of Dataset(/home/me/beyond_basics/HPC/hcp) to get /home/me/beyond_basics/HPC/hcp/HCP1200/130316 -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130316/MNINonLinear -[INFO] Attempting to clone from http://store.datalad.org/439/61042-38ff-11ea-be90-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130316/MNINonLinear -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130316/MNINonLinear) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130316/MNINonLinear (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130316/T1w -[INFO] Attempting to clone from http://store.datalad.org/452/2bbea-38ff-11ea-be90-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130316/T1w -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130316/T1w) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130316/T1w (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130316/unprocessed -[INFO] Attempting to clone from http://store.datalad.org/46a/1cd80-38ff-11ea-be90-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130316/unprocessed -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130316/unprocessed) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130316/unprocessed (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130417 -[INFO] Attempting to clone from http://store.datalad.org/da5/a3938-2aa2-11ea-b13f-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130417 -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130417) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130417 (dataset) [Installed subdataset in order to get /home/me/beyond_basics/HPC/hcp/HCP1200/130417] [INFO] Ensuring presence of Dataset(/home/me/beyond_basics/HPC/hcp) to get /home/me/beyond_basics/HPC/hcp/HCP1200/130417 -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130417/MNINonLinear -[INFO] Attempting to clone from http://store.datalad.org/e8f/5ce4e-2aa2-11ea-a418-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130417/MNINonLinear -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130417/MNINonLinear) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130417/MNINonLinear (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130417/T1w -[INFO] Attempting to clone from http://store.datalad.org/eb1/55924-2aa2-11ea-a418-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130417/T1w -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130417/T1w) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130417/T1w (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130417/unprocessed -[INFO] Attempting to clone from http://store.datalad.org/ed2/969bc-2aa2-11ea-a418-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130417/unprocessed -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130417/unprocessed) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130417/unprocessed (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130518 -[INFO] Attempting to clone from http://store.datalad.org/57a/9ec38-2aa0-11ea-b570-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130518 -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130518) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130518 (dataset) [Installed subdataset in order to get /home/me/beyond_basics/HPC/hcp/HCP1200/130518] [INFO] Ensuring presence of Dataset(/home/me/beyond_basics/HPC/hcp) to get /home/me/beyond_basics/HPC/hcp/HCP1200/130518 -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130518/MNINonLinear -[INFO] Attempting to clone from http://store.datalad.org/63f/8a1aa-2aa0-11ea-bf71-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130518/MNINonLinear -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130518/MNINonLinear) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130518/MNINonLinear (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130518/T1w -[INFO] Attempting to clone from http://store.datalad.org/658/7d860-2aa0-11ea-bf71-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130518/T1w -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130518/T1w) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130518/T1w (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130518/unprocessed -[INFO] Attempting to clone from http://store.datalad.org/674/822f4-2aa0-11ea-bf71-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130518/unprocessed -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130518/unprocessed) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130518/unprocessed (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130619 -[INFO] Attempting to clone from http://store.datalad.org/f6a/43756-2a9d-11ea-8166-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130619 -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130619) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130619 (dataset) [Installed subdataset in order to get /home/me/beyond_basics/HPC/hcp/HCP1200/130619] [INFO] Ensuring presence of Dataset(/home/me/beyond_basics/HPC/hcp) to get /home/me/beyond_basics/HPC/hcp/HCP1200/130619 -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130619/MNINonLinear -[INFO] Attempting to clone from http://store.datalad.org/032/2a332-2a9e-11ea-a1e6-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130619/MNINonLinear -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130619/MNINonLinear) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130619/MNINonLinear (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130619/T1w -[INFO] Attempting to clone from http://store.datalad.org/04a/bbcde-2a9e-11ea-a1e6-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130619/T1w -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130619/T1w) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130619/T1w (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130619/unprocessed -[INFO] Attempting to clone from http://store.datalad.org/064/8fd7c-2a9e-11ea-a1e6-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130619/unprocessed -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130619/unprocessed) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130619/unprocessed (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130720 -[INFO] Attempting to clone from http://store.datalad.org/5a2/318b0-2a99-11ea-9cc0-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130720 -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130720) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130720 (dataset) [Installed subdataset in order to get /home/me/beyond_basics/HPC/hcp/HCP1200/130720] [INFO] Ensuring presence of Dataset(/home/me/beyond_basics/HPC/hcp) to get /home/me/beyond_basics/HPC/hcp/HCP1200/130720 -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130720/MNINonLinear -[INFO] Attempting to clone from http://store.datalad.org/700/ffce2-2a99-11ea-b8dd-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130720/MNINonLinear -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130720/MNINonLinear) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130720/MNINonLinear (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130720/T1w -[INFO] Attempting to clone from http://store.datalad.org/722/fef3c-2a99-11ea-b8dd-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130720/T1w -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130720/T1w) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130720/T1w (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130720/unprocessed -[INFO] Attempting to clone from http://store.datalad.org/76a/4579c-2a99-11ea-b8dd-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130720/unprocessed -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130720/unprocessed) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130720/unprocessed (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130821 -[INFO] Attempting to clone from http://store.datalad.org/b85/e461a-2a95-11ea-bd37-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130821 -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130821) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130821 (dataset) [Installed subdataset in order to get /home/me/beyond_basics/HPC/hcp/HCP1200/130821] [INFO] Ensuring presence of Dataset(/home/me/beyond_basics/HPC/hcp) to get /home/me/beyond_basics/HPC/hcp/HCP1200/130821 -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130821/MNINonLinear -[INFO] Attempting to clone from http://store.datalad.org/c4c/0f862-2a95-11ea-b221-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130821/MNINonLinear -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130821/MNINonLinear) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130821/MNINonLinear (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130821/T1w -[INFO] Attempting to clone from http://store.datalad.org/c7c/23094-2a95-11ea-b221-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130821/T1w -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130821/T1w) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130821/T1w (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130821/unprocessed -[INFO] Attempting to clone from http://store.datalad.org/cb9/ea382-2a95-11ea-b221-002590496000 to /home/me/beyond_basics/HPC/hcp/HCP1200/130821/unprocessed -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130821/unprocessed) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130821/unprocessed (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130922 -[INFO] Attempting to clone from http://store.datalad.org/100/a5212-2a93-11ea-b54a-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130922 -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130922) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130922 (dataset) [Installed subdataset in order to get /home/me/beyond_basics/HPC/hcp/HCP1200/130922] [INFO] Ensuring presence of Dataset(/home/me/beyond_basics/HPC/hcp) to get /home/me/beyond_basics/HPC/hcp/HCP1200/130922 -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130922/MNINonLinear -[INFO] Attempting to clone from http://store.datalad.org/1d8/e51cc-2a93-11ea-bc67-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130922/MNINonLinear -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130922/MNINonLinear) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130922/MNINonLinear (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130922/T1w -[INFO] Attempting to clone from http://store.datalad.org/239/fe7a6-2a93-11ea-bc67-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130922/T1w -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130922/T1w) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130922/T1w (dataset) -[INFO] Attempting a clone into /home/me/beyond_basics/HPC/hcp/HCP1200/130922/unprocessed -[INFO] Attempting to clone from http://store.datalad.org/25e/ee1ba-2a93-11ea-bc67-0025904abcb0 to /home/me/beyond_basics/HPC/hcp/HCP1200/130922/unprocessed -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/HPC/hcp/HCP1200/130922/unprocessed) install(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130922/unprocessed (dataset) -action summary: - install (ok: 36) diff --git a/docs/beyond_basics/_examples/DL-101-149-04 b/docs/beyond_basics/_examples/DL-101-149-04 index c642828cc..4de4d60bf 100644 --- a/docs/beyond_basics/_examples/DL-101-149-04 +++ b/docs/beyond_basics/_examples/DL-101-149-04 @@ -3,6 +3,3 @@ $ datalad copy-file \ -d dataset-to-copy-to copy_file(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130013/T1w/Diffusion/bvals [/home/me/beyond_basics/HPC/dataset-to-copy-to/bvals] save(ok): . (dataset) -action summary: - copy_file (ok: 1) - save (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-149-10 b/docs/beyond_basics/_examples/DL-101-149-10 index fffa3dc92..97cdf8a62 100644 --- a/docs/beyond_basics/_examples/DL-101-149-10 +++ b/docs/beyond_basics/_examples/DL-101-149-10 @@ -17,6 +17,3 @@ copy_file(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130114/T1w/Diffusion/eddyl copy_file(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130114/T1w/Diffusion/grad_dev.nii.gz [/home/me/beyond_basics/HPC/dataset-to-copy-to/130114/T1w/Diffusion/grad_dev.nii.gz] copy_file(ok): /home/me/beyond_basics/HPC/hcp/HCP1200/130114/T1w/Diffusion/nodif_brain_mask.nii.gz [/home/me/beyond_basics/HPC/dataset-to-copy-to/130114/T1w/Diffusion/nodif_brain_mask.nii.gz] save(ok): . (dataset) -action summary: - copy_file (ok: 13) - save (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-149-12 b/docs/beyond_basics/_examples/DL-101-149-12 index 7e4f233fb..df4159134 100644 --- a/docs/beyond_basics/_examples/DL-101-149-12 +++ b/docs/beyond_basics/_examples/DL-101-149-12 @@ -1,7 +1,5 @@ $ cd dataset-to-copy-to $ datalad get bvals anothercopyofbvecs 130114/T1w/Diffusion/eddylogs/eddy_unwarped_images.eddy_parameters +get(ok): 130114/T1w/Diffusion/eddylogs/eddy_unwarped_images.eddy_parameters (file) [from datalad...] get(ok): bvals (file) [from datalad...] get(ok): anothercopyofbvecs (file) [from datalad...] -get(ok): 130114/T1w/Diffusion/eddylogs/eddy_unwarped_images.eddy_parameters (file) [from datalad...] -action summary: - get (ok: 3) diff --git a/docs/beyond_basics/_examples/DL-101-149-14 b/docs/beyond_basics/_examples/DL-101-149-14 index 16c946de5..af503e68f 100644 --- a/docs/beyond_basics/_examples/DL-101-149-14 +++ b/docs/beyond_basics/_examples/DL-101-149-14 @@ -8,6 +8,3 @@ copy_file(ok): HCP1200/130013/T1w/T1w_acpc_dc.nii.gz [/home/me/beyond_basics/HPC copy_file(ok): HCP1200/130013/T1w/T1wDividedByT2w.nii.gz [/home/me/beyond_basics/HPC/dataset-to-copy-to/T1wDividedByT2w.nii.gz] copy_file(ok): HCP1200/130013/T1w/T1w_acpc_dc_restore.nii.gz [/home/me/beyond_basics/HPC/dataset-to-copy-to/T1w_acpc_dc_restore.nii.gz] save(ok): . (dataset) -action summary: - copy_file (ok: 6) - save (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-149-17 b/docs/beyond_basics/_examples/DL-101-149-17 index e3b8dc087..593ce0f76 100644 --- a/docs/beyond_basics/_examples/DL-101-149-17 +++ b/docs/beyond_basics/_examples/DL-101-149-17 @@ -9,6 +9,3 @@ copy_file(ok): HCP1200/130518/T1w/T1w_acpc_dc.nii.gz [/home/me/beyond_basics/HPC copy_file(ok): HCP1200/130518/T1w/T1wDividedByT2w.nii.gz [/home/me/beyond_basics/HPC/dataset-to-copy-to/130518/T1w/T1wDividedByT2w.nii.gz] copy_file(ok): HCP1200/130518/T1w/T1w_acpc_dc_restore.nii.gz [/home/me/beyond_basics/HPC/dataset-to-copy-to/130518/T1w/T1w_acpc_dc_restore.nii.gz] save(ok): . (dataset) -action summary: - copy_file (ok: 7) - save (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-168-103 b/docs/beyond_basics/_examples/DL-101-168-103 index 8edb5ac16..57a96cc55 100644 --- a/docs/beyond_basics/_examples/DL-101-168-103 +++ b/docs/beyond_basics/_examples/DL-101-168-103 @@ -11,6 +11,3 @@ run(ok): /home/me/DVCvsDL/DVC-DataLad (dataset) [VIRTUALENV/bin/python /home/a.. [INFO] == Command exit (modification check follows) ===== run(ok): /home/me/DVCvsDL/DVC-DataLad (dataset) [VIRTUALENV/bin/python /home/a...] create(ok): /home/me/DVCvsDL/DVC-DataLad (dataset) -action summary: - create (ok: 1) - run (ok: 2) diff --git a/docs/beyond_basics/_examples/DL-101-168-104 b/docs/beyond_basics/_examples/DL-101-168-104 index 22e347159..8f801de4a 100644 --- a/docs/beyond_basics/_examples/DL-101-168-104 +++ b/docs/beyond_basics/_examples/DL-101-168-104 @@ -5,15 +5,9 @@ $ datalad download-url -m "download scripts for ML analysis" \ -O 'code/' [INFO] Downloading 'https://raw.githubusercontent.com/datalad-handbook/data-version-control/master/src/train.py' into '/home/me/DVCvsDL/DVC-DataLad/code/' download_url(ok): /home/me/DVCvsDL/DVC-DataLad/code/train.py (file) -[INFO] Downloading 'https://raw.githubusercontent.com/datalad-handbook/data-version-control/master/src/prepare.py' into '/home/me/DVCvsDL/DVC-DataLad/code/' download_url(ok): /home/me/DVCvsDL/DVC-DataLad/code/prepare.py (file) -[INFO] Downloading 'https://raw.githubusercontent.com/datalad-handbook/data-version-control/master/src/evaluate.py' into '/home/me/DVCvsDL/DVC-DataLad/code/' download_url(ok): /home/me/DVCvsDL/DVC-DataLad/code/evaluate.py (file) add(ok): code/evaluate.py (file) add(ok): code/prepare.py (file) add(ok): code/train.py (file) save(ok): . (dataset) -action summary: - add (ok: 3) - download_url (ok: 3) - save (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-168-108 b/docs/beyond_basics/_examples/DL-101-168-108 index fbf6cd70d..3b6d27bd1 100644 --- a/docs/beyond_basics/_examples/DL-101-168-108 +++ b/docs/beyond_basics/_examples/DL-101-168-108 @@ -1,6 +1,6 @@ ### DVC $ git commit -m "initialize dvc" -[master 87e41ba] initialize dvc +[master ae6d2e1] initialize dvc 3 files changed, 6 insertions(+) create mode 100644 .dvc/.gitignore create mode 100644 .dvc/config diff --git a/docs/beyond_basics/_examples/DL-101-168-113 b/docs/beyond_basics/_examples/DL-101-168-113 index 11044b7cc..70637c166 100644 --- a/docs/beyond_basics/_examples/DL-101-168-113 +++ b/docs/beyond_basics/_examples/DL-101-168-113 @@ -1,6 +1,6 @@ ### DVC $ git commit -m "control data with DVC" -[master befe6b7] control data with DVC +[master 9420e0e] control data with DVC 3 files changed, 14 insertions(+) create mode 100644 data/raw/train.dvc create mode 100644 data/raw/val.dvc diff --git a/docs/beyond_basics/_examples/DL-101-168-114 b/docs/beyond_basics/_examples/DL-101-168-114 index ad7891b4f..6f811ed5f 100644 --- a/docs/beyond_basics/_examples/DL-101-168-114 +++ b/docs/beyond_basics/_examples/DL-101-168-114 @@ -15,8 +15,3 @@ save(ok): . (dataset) [INFO] Finished adding /home/me/DVCvsDL/DVC-DataLad/data/raw/imagenette2-160.tgz: Files processed: 2701, renamed: 2701, +annex: 2701 [INFO] Finished extraction add-archive-content(ok): /home/me/DVCvsDL/DVC-DataLad (dataset) -action summary: - add (ok: 1) - add-archive-content (ok: 1) - download_url (ok: 1) - save (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-168-124 b/docs/beyond_basics/_examples/DL-101-168-124 index db0767a3a..0ebd206d8 100644 --- a/docs/beyond_basics/_examples/DL-101-168-124 +++ b/docs/beyond_basics/_examples/DL-101-168-124 @@ -1,5 +1,5 @@ ### DVC $ git add .dvc/config $ git commit -m "add local remote" -[master b4f8467] add local remote +[master e8ef28d] add local remote 1 file changed, 4 insertions(+) diff --git a/docs/beyond_basics/_examples/DL-101-168-131 b/docs/beyond_basics/_examples/DL-101-168-131 index d5046576a..4620c70ec 100644 --- a/docs/beyond_basics/_examples/DL-101-168-131 +++ b/docs/beyond_basics/_examples/DL-101-168-131 @@ -3,13 +3,5 @@ $ datalad clone https://github.com/datalad-handbook/DVC-DataLad.git DVC-DataLad-2 $ cd DVC-DataLad-2 [INFO] Attempting a clone into /home/me/DVCvsDL/DVC-DataLad-2 -[INFO] Attempting to clone from https://github.com/datalad-handbook/DVC-DataLad.git to /home/me/DVCvsDL/DVC-DataLad-2 -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start receiving objects -[INFO] Start resolving deltas -[INFO] Completed clone attempts for Dataset(/home/me/DVCvsDL/DVC-DataLad-2) [INFO] Remote origin not usable by git-annex; setting annex-ignore -[INFO] https://github.com/datalad-handbook/DVC-DataLad.git/config download failed: Not Found install(ok): /home/me/DVCvsDL/DVC-DataLad-2 (dataset) diff --git a/docs/beyond_basics/_examples/DL-101-168-132 b/docs/beyond_basics/_examples/DL-101-168-132 index fdcf7ad49..92390db61 100644 --- a/docs/beyond_basics/_examples/DL-101-168-132 +++ b/docs/beyond_basics/_examples/DL-101-168-132 @@ -3,5 +3,3 @@ $ datalad get data/raw/val [INFO] To obtain some keys we need to fetch an archive of size 15.1 MB [INFO] datalad-archives special remote is using an extraction cache under /home/me/DVCvsDL/DVC-DataLad-2/.git/datalad/tmp/archives/8f2938add6. Remove it with DataLad's 'clean' command to save disk space. get(ok): data/raw/val (directory) -action summary: - get (ok: 790) diff --git a/docs/beyond_basics/_examples/DL-101-168-140 b/docs/beyond_basics/_examples/DL-101-168-140 index 015d67e84..e2735c7f2 100644 --- a/docs/beyond_basics/_examples/DL-101-168-140 +++ b/docs/beyond_basics/_examples/DL-101-168-140 @@ -2,10 +2,6 @@ $ cd DVC-DataLad $ datalad create-sibling --name mysibling ../datalad-sibling [INFO] Considering to create a target dataset /home/me/DVCvsDL/DVC-DataLad at /home/me/DVCvsDL/datalad-sibling of localhost -[INFO] Fetching updates for Dataset(/home/me/DVCvsDL/DVC-DataLad) -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects update(ok): . (dataset) [INFO] Adjusting remote git configuration [INFO] Running post-update hooks in all created siblings diff --git a/docs/beyond_basics/_examples/DL-101-168-141 b/docs/beyond_basics/_examples/DL-101-168-141 index 9a9c3ca76..bc20011b7 100644 --- a/docs/beyond_basics/_examples/DL-101-168-141 +++ b/docs/beyond_basics/_examples/DL-101-168-141 @@ -1,17 +1,6 @@ ### DVC-DataLad $ datalad push --to mysibling [INFO] Determine push target -[INFO] Push refspecs -[INFO] Transfer data -[INFO] Update availability information -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start writing objects -[INFO] Start resolving deltas [INFO] Finished push of Dataset(/home/me/DVCvsDL/DVC-DataLad) -publish(ok): . (dataset) [refs/heads/git-annex->mysibling:refs/heads/git-annex 68c6f019..2ea4ae6f] +publish(ok): . (dataset) [refs/heads/git-annex->mysibling:refs/heads/git-annex eed90ebd..3e75bdaa] publish(ok): . (dataset) [refs/heads/main->mysibling:refs/heads/main [new branch]] -action summary: - copy (ok: 2701) - publish (ok: 2) diff --git a/docs/beyond_basics/_examples/DL-101-168-142 b/docs/beyond_basics/_examples/DL-101-168-142 index 154e8f284..b4f00362c 100644 --- a/docs/beyond_basics/_examples/DL-101-168-142 +++ b/docs/beyond_basics/_examples/DL-101-168-142 @@ -1,5 +1,3 @@ ### DVC-DataLad $ datalad drop data/raw/val drop(ok): data/raw/val (directory) -action summary: - drop (ok: 790) diff --git a/docs/beyond_basics/_examples/DL-101-168-143 b/docs/beyond_basics/_examples/DL-101-168-143 index b8f5ce9b6..aeadbd9b8 100644 --- a/docs/beyond_basics/_examples/DL-101-168-143 +++ b/docs/beyond_basics/_examples/DL-101-168-143 @@ -1,5 +1,3 @@ ### DVC-DataLad $ datalad get data/raw/val get(ok): data/raw/val (directory) -action summary: - get (ok: 790) diff --git a/docs/beyond_basics/_examples/DL-101-168-151 b/docs/beyond_basics/_examples/DL-101-168-151 index 5780e3f37..9a854cc10 100644 --- a/docs/beyond_basics/_examples/DL-101-168-151 +++ b/docs/beyond_basics/_examples/DL-101-168-151 @@ -12,7 +12,7 @@ Updating lock file 'dvc.lock' To track the changes with git, run: - git add data/prepared/.gitignore dvc.lock dvc.yaml + git add data/prepared/.gitignore dvc.yaml dvc.lock To enable auto staging, run: diff --git a/docs/beyond_basics/_examples/DL-101-168-154 b/docs/beyond_basics/_examples/DL-101-168-154 index db99d4f65..d1d471b15 100644 --- a/docs/beyond_basics/_examples/DL-101-168-154 +++ b/docs/beyond_basics/_examples/DL-101-168-154 @@ -17,9 +17,9 @@ stages: outs: - path: data/prepared/test.csv hash: md5 - md5: 536fe137✂MD5 + md5: 0b90b0e8✂MD5 size: 62023 - path: data/prepared/train.csv hash: md5 - md5: 0bad47e2✂MD5 + md5: 360a73ac✂MD5 size: 155128 diff --git a/docs/beyond_basics/_examples/DL-101-168-155 b/docs/beyond_basics/_examples/DL-101-168-155 index d27027f6a..1e5fc1fa0 100644 --- a/docs/beyond_basics/_examples/DL-101-168-155 +++ b/docs/beyond_basics/_examples/DL-101-168-155 @@ -6,13 +6,13 @@ $ dvc stage add -n train \ Added stage 'train' in 'dvc.yaml' Running stage 'train': > python src/train.py -VIRTUALENV/lib/python3.11/site-packages/sklearn/linear_model/_stochastic_gradient.py:702: ConvergenceWarning: Maximum number of iteration reached before convergence. Consider increasing max_iter to improve the fit. +VIRTUALENV/lib/python3.8/site-packages/sklearn/linear_model/_stochastic_gradient.py:713: ConvergenceWarning: Maximum number of iteration reached before convergence. Consider increasing max_iter to improve the fit. warnings.warn( Updating lock file 'dvc.lock' To track the changes with git, run: - git add dvc.yaml dvc.lock model/.gitignore + git add dvc.lock model/.gitignore dvc.yaml To enable auto staging, run: diff --git a/docs/beyond_basics/_examples/DL-101-168-157 b/docs/beyond_basics/_examples/DL-101-168-157 index 9e850d10b..2c64d85e2 100644 --- a/docs/beyond_basics/_examples/DL-101-168-157 +++ b/docs/beyond_basics/_examples/DL-101-168-157 @@ -10,7 +10,7 @@ Updating lock file 'dvc.lock' To track the changes with git, run: - git add dvc.lock dvc.yaml + git add dvc.yaml dvc.lock To enable auto staging, run: diff --git a/docs/beyond_basics/_examples/DL-101-168-159 b/docs/beyond_basics/_examples/DL-101-168-159 index d0049baa7..bcb834b0d 100644 --- a/docs/beyond_basics/_examples/DL-101-168-159 +++ b/docs/beyond_basics/_examples/DL-101-168-159 @@ -1,4 +1,4 @@ ### DVC $ dvc metrics show Path accuracy -metrics/accuracy.json 0.67934 +metrics/accuracy.json 0.75919 diff --git a/docs/beyond_basics/_examples/DL-101-168-160 b/docs/beyond_basics/_examples/DL-101-168-160 index 9dac50cb9..f25ace59c 100644 --- a/docs/beyond_basics/_examples/DL-101-168-160 +++ b/docs/beyond_basics/_examples/DL-101-168-160 @@ -6,7 +6,7 @@ $ git push --set-upstream origin sgd-pipeline $ git tag -a sgd -m "Trained SGD as DVC pipeline." $ git push origin --tags $ dvc push -[sgd-pipeline 21a7688] Add SGD pipeline +[sgd-pipeline 9238080] Add SGD pipeline 5 files changed, 83 insertions(+) create mode 100644 dvc.lock create mode 100644 dvc.yaml diff --git a/docs/beyond_basics/_examples/DL-101-168-165 b/docs/beyond_basics/_examples/DL-101-168-165 index 1b79d5129..fda480c70 100644 --- a/docs/beyond_basics/_examples/DL-101-168-165 +++ b/docs/beyond_basics/_examples/DL-101-168-165 @@ -6,7 +6,7 @@ $ git push --set-upstream origin random-forest $ git tag -a randomforest -m "Random Forest classifier with 80.99% accuracy." $ git push origin --tags $ dvc push -[random-forest 6eb389f] Train Random Forest classifier +[random-forest 64a8207] Train Random Forest classifier 3 files changed, 11 insertions(+), 17 deletions(-) To /home/me/pushes/data-version-control * [new branch] random-forest -> random-forest diff --git a/docs/beyond_basics/_examples/DL-101-168-166 b/docs/beyond_basics/_examples/DL-101-168-166 index ffd4938d7..84c6c0eca 100644 --- a/docs/beyond_basics/_examples/DL-101-168-166 +++ b/docs/beyond_basics/_examples/DL-101-168-166 @@ -1,6 +1,6 @@ ### DVC $ dvc metrics show -T Revision Path accuracy -workspace metrics/accuracy.json 0.80735 -randomforest metrics/accuracy.json 0.80735 -sgd metrics/accuracy.json 0.67934 +workspace metrics/accuracy.json 0.82129 +randomforest metrics/accuracy.json 0.82129 +sgd metrics/accuracy.json 0.75919 diff --git a/docs/beyond_basics/_examples/DL-101-168-177 b/docs/beyond_basics/_examples/DL-101-168-177 index 53fd49e76..bf7905c97 100644 --- a/docs/beyond_basics/_examples/DL-101-168-177 +++ b/docs/beyond_basics/_examples/DL-101-168-177 @@ -1,6 +1,3 @@ $ datalad save -m "Switch to random forest classification" code/train.py add(ok): code/train.py (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-168-178 b/docs/beyond_basics/_examples/DL-101-168-178 index 11844244d..4ebad9f17 100644 --- a/docs/beyond_basics/_examples/DL-101-168-178 +++ b/docs/beyond_basics/_examples/DL-101-168-178 @@ -1,6 +1,6 @@ $ datalad rerun --branch="randomforest" -m "Recompute classification with random forest classifier" ready-for-analysis..SGD -[INFO] checkout commit de525c5; -[INFO] run commit 941ab2f; (Train an SGD clas...) +[INFO] checkout commit 97457b0; +[INFO] run commit c8eb8dc; (Train an SGD clas...) [INFO] Making sure inputs are available (this may take some time) [INFO] Unlocking files unlock(ok): model/model.joblib (file) @@ -11,7 +11,7 @@ unlock(ok): model/model.joblib (file) run(ok): /home/me/DVCvsDL/DVC-DataLad (dataset) [python code/train.py] add(ok): model/model.joblib (file) save(ok): . (dataset) -[INFO] run commit 178d7c6; (Evaluate SGD clas...) +[INFO] run commit b0793d4; (Evaluate SGD clas...) [INFO] Making sure inputs are available (this may take some time) [INFO] == Command start (output follows) ===== [INFO] == Command exit (modification check follows) ===== diff --git a/docs/beyond_basics/_examples/DL-101-168-179 b/docs/beyond_basics/_examples/DL-101-168-179 index 56784e3c9..468cd9faf 100644 --- a/docs/beyond_basics/_examples/DL-101-168-179 +++ b/docs/beyond_basics/_examples/DL-101-168-179 @@ -1,10 +1,10 @@ $ git diff SGD -- metrics/accuracy.json diff --git a/metrics/accuracy.json b/metrics/accuracy.json -index b8423003..41634f21 100644 +index 1058d868..9279f676 100644 --- a/metrics/accuracy.json +++ b/metrics/accuracy.json @@ -1 +1 @@ --{"accuracy": 0.770595690747782} +-{"accuracy": 0.7718631178707225} \ No newline at end of file -+{"accuracy": 0.8086185044359949} ++{"accuracy": 0.8149556400506971} \ No newline at end of file diff --git a/docs/beyond_basics/_examples/DL-101-179-103 b/docs/beyond_basics/_examples/DL-101-179-103 index 28cd8561b..0ce7d0b9f 100644 --- a/docs/beyond_basics/_examples/DL-101-179-103 +++ b/docs/beyond_basics/_examples/DL-101-179-103 @@ -1,6 +1,3 @@ $ datalad save -m "add something to ignore" .gitignore add(ok): .gitignore (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-179-109 b/docs/beyond_basics/_examples/DL-101-179-109 index a83dfcb03..f7f6357a1 100644 --- a/docs/beyond_basics/_examples/DL-101-179-109 +++ b/docs/beyond_basics/_examples/DL-101-179-109 @@ -2,6 +2,3 @@ $ git config -f .gitmodules --replace-all submodule.midterm_project.url https:// $ datalad save -m "SERVICE COMMIT - IGNORE. This commit only serves to appropriately reference the subdataset in the public showroom dataset" add(ok): .gitmodules (file) save(ok): . (dataset) -action summary: - add (ok: 1) - save (ok: 1) diff --git a/docs/beyond_basics/_examples/DL-101-181-101 b/docs/beyond_basics/_examples/DL-101-181-101 index bd0f7967c..9bbb6f10f 100644 --- a/docs/beyond_basics/_examples/DL-101-181-101 +++ b/docs/beyond_basics/_examples/DL-101-181-101 @@ -1,13 +1,5 @@ $ datalad clone https://github.com/datalad-handbook/cozy-screensavers.git $ cd cozy-screensavers [INFO] Attempting a clone into /home/me/beyond_basics/meta/cozy-screensavers -[INFO] Attempting to clone from https://github.com/datalad-handbook/cozy-screensavers.git to /home/me/beyond_basics/meta/cozy-screensavers -[INFO] Start enumerating objects -[INFO] Start counting objects -[INFO] Start compressing objects -[INFO] Start receiving objects -[INFO] Start resolving deltas -[INFO] Completed clone attempts for Dataset(/home/me/beyond_basics/meta/cozy-screensavers) [INFO] Remote origin not usable by git-annex; setting annex-ignore -[INFO] https://github.com/datalad-handbook/cozy-screensavers.git/config download failed: Not Found install(ok): /home/me/beyond_basics/meta/cozy-screensavers (dataset) diff --git a/docs/beyond_basics/_examples/DL-101-181-102 b/docs/beyond_basics/_examples/DL-101-181-102 index dd214c69e..4103fd7c3 100644 --- a/docs/beyond_basics/_examples/DL-101-181-102 +++ b/docs/beyond_basics/_examples/DL-101-181-102 @@ -1,5 +1,5 @@ $ tree . -└── zen.jpg -> .git/annex/objects/PV/X5/✂/MD5E-s5217743--ad8f6e78✂MD5.jpg +└── zen.jpg -> .git/annex/objects/Fx/fM/✂/MD5E-s3351765--e4c0b8d7✂MD5.jpg 0 directories, 1 file diff --git a/docs/beyond_basics/_examples/DL-101-181-108 b/docs/beyond_basics/_examples/DL-101-181-108 index 7f40e084b..fa135186e 100644 --- a/docs/beyond_basics/_examples/DL-101-181-108 +++ b/docs/beyond_basics/_examples/DL-101-181-108 @@ -5,11 +5,11 @@ $ datalad meta-extract -d . metalad_core | jq { "type": "dataset", "dataset_id": "2d540a9d-2ef7-4b5f-8931-7c92f483f0c7", - "dataset_version": "19f2d98d✂SHA1", + "dataset_version": "66aa4e8a✂SHA1", "extractor_name": "metalad_core", "extractor_version": "1", "extraction_parameter": {}, - "extraction_time": 1691514094.1297715, + "extraction_time": 1698845024.5401418, "agent_name": "Elena Piscopia", "agent_email": "elena@example.net", "extracted_metadata": { @@ -25,16 +25,19 @@ $ datalad meta-extract -d . metalad_core | jq "email": "adina.wagner@t-online.de" }, { - "@id": "19f2d98d✂SHA1", + "@id": "66aa4e8a✂SHA1", "identifier": "2d540a9d-2ef7-4b5f-8931-7c92f483f0c7", "@type": "Dataset", - "version": "0-2-g19f2d98", + "version": "0-3-g66aa4e8", "dateCreated": "2023-02-13T07:48:15+01:00", - "dateModified": "2023-02-13T07:55:38+01:00", + "dateModified": "2023-11-01T13:08:02+01:00", "hasContributor": { "@id": "d3765bf6✂MD5" }, "distribution": [ + { + "@id": "4aef00ff-3027-4364-911a-98905cdbdf8d" + }, { "@id": "b8938507-77c0-4479-84a6-cbeb41214ca6" }, diff --git a/docs/beyond_basics/_examples/DL-101-182-103 b/docs/beyond_basics/_examples/DL-101-182-103 index 85273030e..20042dd5f 100644 --- a/docs/beyond_basics/_examples/DL-101-182-103 +++ b/docs/beyond_basics/_examples/DL-101-182-103 @@ -1,11 +1,11 @@ $ tree -L 1 data-cat data-cat -├── README.md ├── artwork ├── assets ├── config.json ├── index.html ├── metadata +├── README.md ├── schema └── templates diff --git a/docs/beyond_basics/_examples/DL-101-182-105 b/docs/beyond_basics/_examples/DL-101-182-105 index d016d195a..064703b8d 100644 --- a/docs/beyond_basics/_examples/DL-101-182-105 +++ b/docs/beyond_basics/_examples/DL-101-182-105 @@ -1,6 +1,4 @@ $ datalad catalog-validate --metadata toy_metadata.jsonl -catalog_validate(ok): /private/tmp/me/catalog -catalog_validate(ok): /private/tmp/me/catalog -catalog_validate(ok): /private/tmp/me/catalog -action summary: - catalog_validate (ok: 3) +catalog_validate(ok): /home/me/catalog +catalog_validate(ok): /home/me/catalog +catalog_validate(ok): /home/me/catalog diff --git a/docs/beyond_basics/_examples/DL-101-182-106 b/docs/beyond_basics/_examples/DL-101-182-106 index 9947e599a..4ab3131df 100644 --- a/docs/beyond_basics/_examples/DL-101-182-106 +++ b/docs/beyond_basics/_examples/DL-101-182-106 @@ -2,5 +2,3 @@ $ datalad catalog-add --catalog data-cat --metadata toy_metadata.jsonl catalog_add(ok): data-cat [Metadata record successfully added to catalog (dataset: dataset_id=5df8eb3a-95c5-11ea-b4b9-a0369f287950, dataset_version=dae38cf9✂SHA1)] catalog_add(ok): data-cat [Metadata record successfully updated in catalog (filetree of dataset: dataset_id=5df8eb3a-95c5-11ea-b4b9-a0369f287950, dataset_version=dae38cf9✂SHA1)] catalog_add(ok): data-cat [Metadata record successfully updated in catalog (filetree of dataset: dataset_id=5df8eb3a-95c5-11ea-b4b9-a0369f287950, dataset_version=dae38cf9✂SHA1)] -action summary: - catalog_add (ok: 3) diff --git a/docs/beyond_basics/_examples/DL-101-182-114 b/docs/beyond_basics/_examples/DL-101-182-114 index 1bbf53809..6a87776c4 100644 --- a/docs/beyond_basics/_examples/DL-101-182-114 +++ b/docs/beyond_basics/_examples/DL-101-182-114 @@ -4,12 +4,7 @@ catalog_create(ok): custom-cat [Catalog successfully created at: custom-cat] catalog_add(ok): custom-cat [Metadata record successfully added to catalog (dataset: dataset_id=5df8eb3a-95c5-11ea-b4b9-a0369f287950, dataset_version=dae38cf9✂SHA1)] catalog_add(ok): custom-cat [Metadata record successfully updated in catalog (filetree of dataset: dataset_id=5df8eb3a-95c5-11ea-b4b9-a0369f287950, dataset_version=dae38cf9✂SHA1)] catalog_add(ok): custom-cat [Metadata record successfully updated in catalog (filetree of dataset: dataset_id=5df8eb3a-95c5-11ea-b4b9-a0369f287950, dataset_version=dae38cf9✂SHA1)] -action summary: - catalog_add (ok: 3) catalog_add(ok): custom-cat [Metadata record successfully added to catalog (dataset: dataset_id=5df8eb3a-95c5-11ea-b4b9-a0369f287950, dataset_version=dae38cf9✂SHA1)] catalog_add(ok): custom-cat [Metadata record successfully updated in catalog (filetree of dataset: dataset_id=5df8eb3a-95c5-11ea-b4b9-a0369f287950, dataset_version=dae38cf9✂SHA1)] catalog_add(ok): custom-cat [Metadata record successfully updated in catalog (filetree of dataset: dataset_id=5df8eb3a-95c5-11ea-b4b9-a0369f287950, dataset_version=dae38cf9✂SHA1)] -action summary: - catalog_add (ok: 3) - catalog_create (ok: 1) catalog_set(ok): custom-cat [Home page successfully set to: dataset_id=5df8eb3a-95c5-11ea-b4b9-a0369f287950, dataset_version=dae38cf9✂SHA1.] diff --git a/docs/conf.py b/docs/conf.py index a85b801d4..f4f9698ae 100644 --- a/docs/conf.py +++ b/docs/conf.py @@ -63,6 +63,25 @@ # should still be functional and save 30+% of line length (r'(?P[0-9a-f]{8})[0-9a-f]{32}', r'\g✂SHA1'), (r'(?P[0-9a-f]{8})[0-9a-f]{24}', r'\g✂MD5'), + # remove any action summary that contains no `notneeded`, the latter + # need to be kept, because they are not renderer individually + (r'(action summary:(\n^ \S+ \(\S+(?