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Updating anvil-edge README for edge-24-09-26-06-11-1
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7 changes: 7 additions & 0 deletions
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reports/anvil-edge/tool-tests/edge-24-09-26-06-11-1/chunk.json
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| @@ -0,0 +1,7 @@ | ||
| { | ||
| "6": { | ||
| "run1": "https://htmlpreview.github.io/?https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-24-09-26-06-11-1/results.html", | ||
| "date1": "Thu Sep 26 06:25:57 2024", | ||
| "tools": "https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-24-09-26-06-11-1/tools.yml" | ||
| } | ||
| } |
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reports/anvil-edge/tool-tests/edge-24-09-26-06-11-1/chunk.txt
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,23 @@ | ||
| -t split_file_to_collection --tool-version 6cbe2f30c2d7 | ||
| -t deeptools_multi_bigwig_summary --tool-version 3c9f0c486cca | ||
| -t fastq_paired_end_interlacer --tool-version 2ccb8dcabddc | ||
| -t jbrowse --tool-version 4542035c1075 | ||
| -t jbrowse --tool-version a6e57ff585c0 | ||
| -t mummer_delta_filter --tool-version b3acbb3a6af0 | ||
| -t poretools_winner --tool-version 79c1ac92f31b | ||
| -t edger --tool-version 334ce9b1bac5 | ||
| -t qualimap_multi_bamqc --tool-version e38af83df163 | ||
| -t samtools_sort --tool-version e613c1ad4c4c | ||
| -t 10x_bamtofastq --tool-version f71fd828c126 | ||
| -t raceid_trajectory --tool-version 72979cac22b2 | ||
| -t raceid_trajectory --tool-version c92d0f9338c5 | ||
| -t scanpy_inspect --tool-version c5d3684f7c4c | ||
| -t scanpy_find_variable_genes --tool-version 0edb75c411a4 | ||
| -t scanpy_find_variable_genes --tool-version 5c62f39aab8f | ||
| -t concatenate_multiple_datasets --tool-version 201c568972c3 | ||
| -t snpfreqplot --tool-version e362b3143cde | ||
| -t bcftools_gtcheck --tool-version 672b6c02fbc7 | ||
| -t bcftools_reheader --tool-version 9ef52d95114b | ||
| -t bcftools_plugin_tag2tag --tool-version bdfdf5f6e950 | ||
| -t vcfgenotypes --tool-version a60ae8af21a1 | ||
| -t ivar_removereads --tool-version ee2beb764a7b |
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45
reports/anvil-edge/tool-tests/edge-24-09-26-06-11-1/errors/07d6221a8c38e857.json
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,45 @@ | ||
| { | ||
| "model_class": "Job", | ||
| "id": "07d6221a8c38e857", | ||
| "history_id": "3098fe27d4d720a9", | ||
| "tool_id": "upload1", | ||
| "state": "error", | ||
| "exit_code": null, | ||
| "create_time": "2024-09-26T06:27:41.895846", | ||
| "update_time": "2024-09-26T06:27:52.364212", | ||
| "galaxy_version": "24.1", | ||
| "external_id": "gxy-nw5gn", | ||
| "handler": null, | ||
| "job_runner_name": null, | ||
| "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/3/registry.xml' '/galaxy/server/database/jobs_directory/000/3/upload_params.json' '5:/galaxy/server/database/objects/3/b/1/dataset_3b1b29e0-f02f-447f-8490-ba4b1619c725_files:/galaxy/server/database/objects/3/b/1/dataset_3b1b29e0-f02f-447f-8490-ba4b1619c725.dat'", | ||
| "user_email": "tests@fake.org", | ||
| "command_version": null, | ||
| "params": { | ||
| "paramfile": "\"/galaxy/server/database/tmp/upload_params_bivtoefm\"", | ||
| "files_metadata": "{\"__current_case__\": 325, \"file_type\": \"tabular\"}", | ||
| "dbkey": "\"?\"", | ||
| "force_composite": "\"false\"", | ||
| "files": "[{\"NAME\": \"test.tabular\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_80ygfcmg\", \"file_type\": \"\", \"ftp_files\": null, \"space_to_tab\": null, \"to_posix_lines\": \"Yes\", \"url_paste\": null, \"uuid\": null}]", | ||
| "file_count": "\"auto\"", | ||
| "file_type": "\"tabular\"" | ||
| }, | ||
| "inputs": {}, | ||
| "outputs": { | ||
| "output0": { | ||
| "id": "1a1da52757ab93dd", | ||
| "src": "hda", | ||
| "uuid": "3b1b29e0-f02f-447f-8490-ba4b1619c725" | ||
| } | ||
| }, | ||
| "copied_from_job_id": null, | ||
| "output_collections": {}, | ||
| "tool_stdout": "", | ||
| "tool_stderr": "", | ||
| "job_stdout": null, | ||
| "job_stderr": null, | ||
| "stdout": "", | ||
| "stderr": "", | ||
| "job_messages": null, | ||
| "dependencies": [], | ||
| "job_metrics": [] | ||
| } |
45 changes: 45 additions & 0 deletions
45
reports/anvil-edge/tool-tests/edge-24-09-26-06-11-1/errors/19017f64e72ada7a.json
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,45 @@ | ||
| { | ||
| "model_class": "Job", | ||
| "id": "19017f64e72ada7a", | ||
| "history_id": "3098fe27d4d720a9", | ||
| "tool_id": "upload1", | ||
| "state": "error", | ||
| "exit_code": null, | ||
| "create_time": "2024-09-26T07:21:02.699431", | ||
| "update_time": "2024-09-26T07:21:11.656598", | ||
| "galaxy_version": "24.1", | ||
| "external_id": "gxy-g42l6", | ||
| "handler": null, | ||
| "job_runner_name": null, | ||
| "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/223/registry.xml' '/galaxy/server/database/jobs_directory/000/223/upload_params.json' '301:/galaxy/server/database/objects/3/f/4/dataset_3f4ebe10-8305-496d-b1fb-7175aa33395f_files:/galaxy/server/database/objects/3/f/4/dataset_3f4ebe10-8305-496d-b1fb-7175aa33395f.dat'", | ||
| "user_email": "tests@fake.org", | ||
| "command_version": null, | ||
| "params": { | ||
| "paramfile": "\"/galaxy/server/database/tmp/upload_params_ogup27wx\"", | ||
| "files_metadata": "{\"__current_case__\": 708, \"file_type\": \"auto\"}", | ||
| "dbkey": "\"?\"", | ||
| "force_composite": "\"false\"", | ||
| "files": "[{\"NAME\": \"pbmc68k_reduced.h5ad\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_ybdol_u1\", \"file_type\": \"\", \"ftp_files\": null, \"space_to_tab\": null, \"to_posix_lines\": \"Yes\", \"url_paste\": null, \"uuid\": null}]", | ||
| "file_count": "\"auto\"", | ||
| "file_type": "\"auto\"" | ||
| }, | ||
| "inputs": {}, | ||
| "outputs": { | ||
| "output0": { | ||
| "id": "00542db1d5daec7e", | ||
| "src": "hda", | ||
| "uuid": "3f4ebe10-8305-496d-b1fb-7175aa33395f" | ||
| } | ||
| }, | ||
| "copied_from_job_id": null, | ||
| "output_collections": {}, | ||
| "tool_stdout": "", | ||
| "tool_stderr": "", | ||
| "job_stdout": null, | ||
| "job_stderr": null, | ||
| "stdout": "", | ||
| "stderr": "", | ||
| "job_messages": null, | ||
| "dependencies": [], | ||
| "job_metrics": [] | ||
| } |
65 changes: 65 additions & 0 deletions
65
reports/anvil-edge/tool-tests/edge-24-09-26-06-11-1/errors/1ac41d8e5dbdfebe.json
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,65 @@ | ||
| { | ||
| "model_class": "Job", | ||
| "id": "1ac41d8e5dbdfebe", | ||
| "history_id": "3098fe27d4d720a9", | ||
| "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse/1.16.11+galaxy1", | ||
| "state": "error", | ||
| "exit_code": null, | ||
| "create_time": "2024-09-26T06:45:13.000450", | ||
| "update_time": "2024-09-26T06:45:20.024636", | ||
| "galaxy_version": "24.1", | ||
| "external_id": "gxy-69pcb", | ||
| "handler": null, | ||
| "job_runner_name": null, | ||
| "command_line": "mkdir -p /galaxy/server/database/objects/8/d/0/dataset_8d0e6bf3-9387-4998-b025-838e1189bcae_files && cp /galaxy/server/database/jobs_directory/000/81/configs/tmpoljwv_wu /galaxy/server/database/objects/8/d/0/dataset_8d0e6bf3-9387-4998-b025-838e1189bcae_files/galaxy.xml && export JBROWSE_SOURCE_DIR=$(dirname $(which prepare-refseqs.pl))/../opt/jbrowse && python '/cvmfs/cloud.galaxyproject.org/tools/toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/a6e57ff585c0/jbrowse/jbrowse.py' --jbrowse ${JBROWSE_SOURCE_DIR} --standalone 'data' --outdir /galaxy/server/database/objects/8/d/0/dataset_8d0e6bf3-9387-4998-b025-838e1189bcae_files /galaxy/server/database/jobs_directory/000/81/configs/tmpoljwv_wu && cp /galaxy/server/database/jobs_directory/000/81/configs/tmpxt5aj7ik /galaxy/server/database/objects/8/d/0/dataset_8d0e6bf3-9387-4998-b025-838e1189bcae.dat; cp /galaxy/server/database/jobs_directory/000/81/configs/tmpoljwv_wu /galaxy/server/database/objects/8/d/0/dataset_8d0e6bf3-9387-4998-b025-838e1189bcae.dat", | ||
| "user_email": "tests@fake.org", | ||
| "command_version": null, | ||
| "params": { | ||
| "__input_ext": "\"fasta\"", | ||
| "dbkey": "\"?\"", | ||
| "chromInfo": "\"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len\"", | ||
| "uglyTestingHack": "\"enabled\"", | ||
| "plugins": "{\"BlastView\": true, \"ComboTrackSelector\": false, \"GCContent\": false}", | ||
| "jbgen": "{\"aboutDescription\": \"\", \"defaultLocation\": \"\", \"hideGenomeOptions\": false, \"shareLink\": true, \"show_menu\": true, \"show_nav\": true, \"show_overview\": true, \"show_tracklist\": true, \"trackPadding\": \"20\"}", | ||
| "track_groups": "[{\"__index__\": 0, \"category\": \"With custom track config\", \"data_tracks\": [{\"__index__\": 0, \"data_format\": {\"__current_case__\": 2, \"annotation\": {\"values\": [{\"id\": 128, \"src\": \"hda\"}]}, \"data_format_select\": \"gene_calls\", \"index\": false, \"jb_custom_config\": {\"option\": [{\"__index__\": 0, \"opt_key\": \"displayMode\", \"opt_value\": {\"__current_case__\": 0, \"val\": \"collapsed\", \"val_type\": \"text\"}}, {\"__index__\": 1, \"opt_key\": \"histograms.height\", \"opt_value\": {\"__current_case__\": 1, \"val\": \"150\", \"val_type\": \"integer\"}}, {\"__index__\": 2, \"opt_key\": \"maxFeatureScreenDensity\", \"opt_value\": {\"__current_case__\": 2, \"val\": \"0.1\", \"val_type\": \"float\"}}, {\"__index__\": 3, \"opt_key\": \"style.strandArrow\", \"opt_value\": {\"__current_case__\": 3, \"val\": false, \"val_type\": \"boolean\"}}]}, \"jbcolor_scale\": {\"color_score\": {\"__current_case__\": 0, \"color\": {\"__current_case__\": 0, \"color_select\": \"automatic\"}, \"color_score_select\": \"none\"}}, \"jbmenu\": {\"track_menu\": []}, \"jbstyle\": {\"max_height\": \"600\", \"style_classname\": \"feature\", \"style_description\": \"note,description\", \"style_height\": \"10px\", \"style_label\": \"product,name,id\"}, \"match_part\": {\"__current_case__\": 1, \"match_part_select\": false}, \"override_apollo_drag\": \"False\", \"override_apollo_plugins\": \"False\", \"track_config\": {\"__current_case__\": 3, \"html_options\": {\"topLevelFeatures\": null}, \"track_class\": \"NeatHTMLFeatures/View/Track/NeatFeatures\"}, \"track_visibility\": \"default_off\"}}]}]", | ||
| "action": "{\"__current_case__\": 0, \"action_select\": \"create\"}", | ||
| "gencode": "\"11\"", | ||
| "standalone": "\"data\"", | ||
| "reference_genome": "{\"__current_case__\": 1, \"genome\": {\"values\": [{\"id\": 127, \"src\": \"hda\"}]}, \"genome_type_select\": \"history\"}" | ||
| }, | ||
| "inputs": { | ||
| "reference_genome|genome": { | ||
| "id": "7d19f37db528e27d", | ||
| "src": "hda", | ||
| "uuid": "774e3fba-1f7f-4de1-b375-89b3efe414b5" | ||
| }, | ||
| "track_groups_0|data_tracks_0|data_format|annotation": { | ||
| "id": "06ca65099da97823", | ||
| "src": "hda", | ||
| "uuid": "fcecb1cb-a276-4660-8d41-af6083b1fa53" | ||
| }, | ||
| "track_groups_0|data_tracks_0|data_format|annotation1": { | ||
| "id": "06ca65099da97823", | ||
| "src": "hda", | ||
| "uuid": "fcecb1cb-a276-4660-8d41-af6083b1fa53" | ||
| } | ||
| }, | ||
| "outputs": { | ||
| "output": { | ||
| "id": "4c746ee94b13983c", | ||
| "src": "hda", | ||
| "uuid": "8d0e6bf3-9387-4998-b025-838e1189bcae" | ||
| } | ||
| }, | ||
| "copied_from_job_id": null, | ||
| "output_collections": {}, | ||
| "tool_stdout": "", | ||
| "tool_stderr": "INFO:jbrowse:Processing With custom track config / 1.gff\nWARNING: No feature names found for indexing, only reference sequence names will be indexed.\n", | ||
| "job_stdout": null, | ||
| "job_stderr": null, | ||
| "stdout": "", | ||
| "stderr": "INFO:jbrowse:Processing With custom track config / 1.gff\nWARNING: No feature names found for indexing, only reference sequence names will be indexed.\n", | ||
| "job_messages": null, | ||
| "dependencies": [], | ||
| "job_metrics": [] | ||
| } |
59 changes: 59 additions & 0 deletions
59
reports/anvil-edge/tool-tests/edge-24-09-26-06-11-1/errors/20af963fa3c35386.json
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,59 @@ | ||
| { | ||
| "model_class": "Job", | ||
| "id": "20af963fa3c35386", | ||
| "history_id": "3098fe27d4d720a9", | ||
| "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/edger/edger/3.36.0+galaxy5", | ||
| "state": "error", | ||
| "exit_code": null, | ||
| "create_time": "2024-09-26T06:58:10.494804", | ||
| "update_time": "2024-09-26T06:58:20.262797", | ||
| "galaxy_version": "24.1", | ||
| "external_id": "gxy-dsjb2", | ||
| "handler": null, | ||
| "job_runner_name": null, | ||
| "command_line": "Rscript '/cvmfs/cloud.galaxyproject.org/tools/toolshed.g2.bx.psu.edu/repos/iuc/edger/ae2aad0a6d50/edger/edger.R' -R '/galaxy/server/database/objects/b/d/b/dataset_bdb30613-3f5a-4985-bf2b-8dd6f9146e34.dat' -o '/galaxy/server/database/objects/b/d/b/dataset_bdb30613-3f5a-4985-bf2b-8dd6f9146e34_files' -m '/galaxy/server/database/objects/7/c/4/dataset_7c4c157c-48c4-4505-b860-7489a7ed4447.dat' -i 'Genotype::MutA,MutA,MutA,MutB,MutB,MutB,WTA,WTA,WTA,WTB,WTB,WTB' -C '(MutA-MutB)-(WTA-WTB)' -l '0.0' -p '0.05' -d 'BH' -n 'TMM' -b && mkdir ./output_dir && cp '/galaxy/server/database/objects/b/d/b/dataset_bdb30613-3f5a-4985-bf2b-8dd6f9146e34_files'/*.tsv output_dir/", | ||
| "user_email": "tests@fake.org", | ||
| "command_version": null, | ||
| "params": { | ||
| "__input_ext": "\"tabular\"", | ||
| "dbkey": "\"?\"", | ||
| "chromInfo": "\"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len\"", | ||
| "adv": "{\"lfc\": \"0.0\", \"lrtOption\": false, \"normalisationOption\": \"TMM\", \"pAdjust\": \"BH\", \"pVal\": \"0.05\", \"robOption\": true}", | ||
| "out": "{\"normCounts\": false, \"rdaOption\": false, \"rscript\": false}", | ||
| "f": "{\"filt\": {\"__current_case__\": 1, \"filt_select\": \"no\"}}", | ||
| "contrasts": "{\"__current_case__\": 0, \"contrastOpt\": \"manual\", \"rep_contrast\": [{\"__index__\": 0, \"contrast\": \"(MutA-MutB)-(WTA-WTB)\"}]}", | ||
| "formula": null, | ||
| "anno": "{\"__current_case__\": 1, \"annoOpt\": \"no\"}", | ||
| "input": "{\"__current_case__\": 1, \"counts\": {\"values\": [{\"id\": 181, \"src\": \"hda\"}]}, \"fact\": {\"__current_case__\": 1, \"ffile\": \"no\", \"rep_factor\": [{\"__index__\": 0, \"factorName\": \"Genotype\", \"groupNames\": \"MutA,MutA,MutA,MutB,MutB,MutB,WTA,WTA,WTA,WTB,WTB,WTB\"}]}, \"format\": \"matrix\"}" | ||
| }, | ||
| "inputs": { | ||
| "input|counts": { | ||
| "id": "6a0776580f0b9a55", | ||
| "src": "hda", | ||
| "uuid": "7c4c157c-48c4-4505-b860-7489a7ed4447" | ||
| } | ||
| }, | ||
| "outputs": { | ||
| "outReport": { | ||
| "id": "b33f740e19d1d6b4", | ||
| "src": "hda", | ||
| "uuid": "bdb30613-3f5a-4985-bf2b-8dd6f9146e34" | ||
| } | ||
| }, | ||
| "copied_from_job_id": null, | ||
| "output_collections": { | ||
| "outTables": { | ||
| "src": "hdca", | ||
| "id": "0d649244201b625b" | ||
| } | ||
| }, | ||
| "tool_stdout": "", | ||
| "tool_stderr": "Warning message:\nIn Sys.setlocale(\"LC_MESSAGES\", \"en_US.UTF-8\") :\n OS reports request to set locale to \"en_US.UTF-8\" cannot be honored\nWarning message:\nIn plot.xy(xy, type, ...) : NAs introduced by coercion\nWarning message:\nIn plot.xy(xy, type, ...) : NAs introduced by coercion\n", | ||
| "job_stdout": null, | ||
| "job_stderr": null, | ||
| "stdout": "", | ||
| "stderr": "Warning message:\nIn Sys.setlocale(\"LC_MESSAGES\", \"en_US.UTF-8\") :\n OS reports request to set locale to \"en_US.UTF-8\" cannot be honored\nWarning message:\nIn plot.xy(xy, type, ...) : NAs introduced by coercion\nWarning message:\nIn plot.xy(xy, type, ...) : NAs introduced by coercion\n", | ||
| "job_messages": null, | ||
| "dependencies": [], | ||
| "job_metrics": [] | ||
| } |
45 changes: 45 additions & 0 deletions
45
reports/anvil-edge/tool-tests/edge-24-09-26-06-11-1/errors/3c553abef6b07f47.json
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,45 @@ | ||
| { | ||
| "model_class": "Job", | ||
| "id": "3c553abef6b07f47", | ||
| "history_id": "3098fe27d4d720a9", | ||
| "tool_id": "upload1", | ||
| "state": "error", | ||
| "exit_code": null, | ||
| "create_time": "2024-09-26T07:26:44.242612", | ||
| "update_time": "2024-09-26T07:26:54.957286", | ||
| "galaxy_version": "24.1", | ||
| "external_id": "gxy-k4ss4", | ||
| "handler": null, | ||
| "job_runner_name": null, | ||
| "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/254/registry.xml' '/galaxy/server/database/jobs_directory/000/254/upload_params.json' '338:/galaxy/server/database/objects/0/1/4/dataset_014b43a0-7c7a-4992-85fd-082db9c91973_files:/galaxy/server/database/objects/0/1/4/dataset_014b43a0-7c7a-4992-85fd-082db9c91973.dat'", | ||
| "user_email": "tests@fake.org", | ||
| "command_version": null, | ||
| "params": { | ||
| "paramfile": "\"/galaxy/server/database/tmp/upload_params_jch00nct\"", | ||
| "files_metadata": "{\"__current_case__\": 325, \"file_type\": \"tabular\"}", | ||
| "dbkey": "\"?\"", | ||
| "force_composite": "\"false\"", | ||
| "files": "[{\"NAME\": \"input436.tabular\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data__6fnpe95\", \"file_type\": \"\", \"ftp_files\": null, \"space_to_tab\": null, \"to_posix_lines\": \"Yes\", \"url_paste\": null, \"uuid\": null}]", | ||
| "file_count": "\"auto\"", | ||
| "file_type": "\"tabular\"" | ||
| }, | ||
| "inputs": {}, | ||
| "outputs": { | ||
| "output0": { | ||
| "id": "04b3a0f90df02e05", | ||
| "src": "hda", | ||
| "uuid": "014b43a0-7c7a-4992-85fd-082db9c91973" | ||
| } | ||
| }, | ||
| "copied_from_job_id": null, | ||
| "output_collections": {}, | ||
| "tool_stdout": "", | ||
| "tool_stderr": "", | ||
| "job_stdout": null, | ||
| "job_stderr": null, | ||
| "stdout": "", | ||
| "stderr": "", | ||
| "job_messages": null, | ||
| "dependencies": [], | ||
| "job_metrics": [] | ||
| } |
45 changes: 45 additions & 0 deletions
45
reports/anvil-edge/tool-tests/edge-24-09-26-06-11-1/errors/4e54a34b8b4dbac7.json
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,45 @@ | ||
| { | ||
| "model_class": "Job", | ||
| "id": "4e54a34b8b4dbac7", | ||
| "history_id": "3098fe27d4d720a9", | ||
| "tool_id": "upload1", | ||
| "state": "error", | ||
| "exit_code": null, | ||
| "create_time": "2024-09-26T07:02:05.701614", | ||
| "update_time": "2024-09-26T07:02:56.610121", | ||
| "galaxy_version": "24.1", | ||
| "external_id": "gxy-2grbp", | ||
| "handler": null, | ||
| "job_runner_name": null, | ||
| "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/156/registry.xml' '/galaxy/server/database/jobs_directory/000/156/upload_params.json' '214:/galaxy/server/database/objects/a/8/c/dataset_a8c63a07-c3c0-435f-9777-eb8d0fd368d1_files:/galaxy/server/database/objects/a/8/c/dataset_a8c63a07-c3c0-435f-9777-eb8d0fd368d1.dat'", | ||
| "user_email": "tests@fake.org", | ||
| "command_version": null, | ||
| "params": { | ||
| "paramfile": "\"/galaxy/server/database/tmp/upload_params_og085nx0\"", | ||
| "files_metadata": "{\"__current_case__\": 708, \"file_type\": \"auto\"}", | ||
| "dbkey": "\"?\"", | ||
| "force_composite": "\"false\"", | ||
| "files": "[{\"NAME\": \"Mut2.counts\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_w3pi5zy_\", \"file_type\": \"\", \"ftp_files\": null, \"space_to_tab\": null, \"to_posix_lines\": \"Yes\", \"url_paste\": null, \"uuid\": null}]", | ||
| "file_count": "\"auto\"", | ||
| "file_type": "\"auto\"" | ||
| }, | ||
| "inputs": {}, | ||
| "outputs": { | ||
| "output0": { | ||
| "id": "7e863cf1024ce8a9", | ||
| "src": "hda", | ||
| "uuid": "a8c63a07-c3c0-435f-9777-eb8d0fd368d1" | ||
| } | ||
| }, | ||
| "copied_from_job_id": null, | ||
| "output_collections": {}, | ||
| "tool_stdout": "", | ||
| "tool_stderr": "", | ||
| "job_stdout": null, | ||
| "job_stderr": null, | ||
| "stdout": "", | ||
| "stderr": "", | ||
| "job_messages": null, | ||
| "dependencies": [], | ||
| "job_metrics": [] | ||
| } |
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