Updating anvil-edge README for edge-24-10-12-18-15-1

anvilproject · Oct 12, 2024 · 225c54e · 225c54e
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diff --git a/reports/anvil-edge/README.md b/reports/anvil-edge/README.md
diff --git a/reports/anvil-edge/tool-tests/chunks.json b/reports/anvil-edge/tool-tests/chunks.json
@@ -91,10 +91,10 @@
         "date2": "Mon Sep 30 06:26:55 2024"
     },
     "11": {
-        "run1": "https://htmlpreview.github.io/?https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-24-10-05-18-15-1/results.html",
-        "date1": "Sat Oct 05 18:31:26 2024",
-        "tools": "https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-24-10-05-18-15-1/tools.yml",
-        "run2": "https://htmlpreview.github.io/?https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-24-09-28-18-16-1/results.html",
-        "date2": "Sat Sep 28 18:31:23 2024"
+        "run1": "https://htmlpreview.github.io/?https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/results.html",
+        "date1": "Sat Oct 12 18:31:28 2024",
+        "tools": "https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/tools.yml",
+        "run2": "https://htmlpreview.github.io/?https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-24-10-05-18-15-1/results.html",
+        "date2": "Sat Oct 05 18:31:26 2024"
     }
 }
diff --git a/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/chunk.json b/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/chunk.json
@@ -0,0 +1,7 @@
+{
+    "11": {
+        "run1": "https://htmlpreview.github.io/?https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/results.html",
+        "date1": "Sat Oct 12 18:31:28 2024",
+        "tools": "https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/tools.yml"
+    }
+}
diff --git a/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/chunk.txt b/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/chunk.txt
@@ -0,0 +1,26 @@
+-t datamash_ops --tool-version 746e8e4bf929
+-t deeptools_plot_pca --tool-version 69264da0ce77
+-t seq_filter_by_id --tool-version 141612f8c3e3
+-t bwameth --tool-version 29bdbc353f20
+-t medaka_consensus --tool-version db25ec99c3ea
+-t poretools_nucdist --tool-version a57b6350fd5d
+-t rseqc --tool-version 1a052c827e88
+-t rseqc --tool-version dbedfc5f5a3c
+-t samtools_fastx --tool-version a8d69aee190e
+-t samtools_slice_bam --tool-version a4a10c7924d1
+-t anndata_inspect --tool-version 688357ad5e61
+-t anndata_inspect --tool-version 286a24ac079c
+-t anndata_inspect --tool-version ee98d611afc6
+-t scater_create_qcmetric_ready_sce --tool-version 8f333f90d8d6
+-t scater_create_qcmetric_ready_sce --tool-version fd808de478b1
+-t gtf2gene_list --tool-version 1a642de6db01
+-t scanpy_run_umap --tool-version 0f98603d0116
+-t scanpy_run_umap --tool-version abae3d11d920
+-t text_processing --tool-version ddf54b12c295
+-t text_processing --tool-version 9ff72e942410
+-t lofreq_alnqual --tool-version 09d6e4693887
+-t bcftools_plugin_missing2ref --tool-version dfef7a353ed0
+-t bcftools_merge --tool-version e03f2f3ac3a9
+-t vcfannotategenotypes --tool-version 84959112d9a6
+-t vcfsort --tool-version f0580efedada
+-t ivar_variants --tool-version f95f403841ad
diff --git a/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/0501332c8a014f71.json b/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/0501332c8a014f71.json
@@ -0,0 +1,48 @@
+{
+    "model_class": "Job",
+    "id": "0501332c8a014f71",
+    "history_id": "d0ca669cb224825b",
+    "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/anndata_inspect/anndata_inspect/0.7.5+galaxy1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2024-10-12T19:02:29.583455",
+    "update_time": "2024-10-12T19:02:36.262864",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-6pxpc",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "cat '/galaxy/server/database/jobs_directory/000/105/configs/tmpdo90tv83' && python '/galaxy/server/database/jobs_directory/000/105/configs/tmpdo90tv83'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "__input_ext": "\"h5ad\"",
+        "dbkey": "\"?\"",
+        "chromInfo": "\"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len\"",
+        "inspect": "{\"__current_case__\": 6, \"info\": \"obsm\", \"obsm_info\": \"X_diffmap\"}"
+    },
+    "inputs": {
+        "input": {
+            "id": "4c56f5b0229b9308",
+            "src": "hda",
+            "uuid": "3cd375ea-b8fd-44f8-9e7b-54473a3d15ff"
+        }
+    },
+    "outputs": {
+        "obsm_X_diffmap": {
+            "id": "aba37b62a5ae26e4",
+            "src": "hda",
+            "uuid": "c03abd84-9b4b-40e6-84fa-3dec98c0053e"
+        }
+    },
+    "copied_from_job_id": null,
+    "output_collections": {},
+    "tool_stdout": "\n\nimport anndata as ad\n    \n    \nimport pandas as pd\nfrom scipy import io\n\npd.options.display.precision = 15\n\nadata = ad.read('/galaxy/server/database/objects/3/c/d/dataset_3cd375ea-b8fd-44f8-9e7b-54473a3d15ff.dat')\n\npd.DataFrame(adata.obsm['X_diffmap']).to_csv(\"/galaxy/server/database/objects/c/0/3/dataset_c03abd84-9b4b-40e6-84fa-3dec98c0053e.dat\", sep=\"\\t\", index = False)\n\n",
+    "tool_stderr": "",
+    "job_stdout": null,
+    "job_stderr": null,
+    "stdout": "\n\nimport anndata as ad\n    \n    \nimport pandas as pd\nfrom scipy import io\n\npd.options.display.precision = 15\n\nadata = ad.read('/galaxy/server/database/objects/3/c/d/dataset_3cd375ea-b8fd-44f8-9e7b-54473a3d15ff.dat')\n\npd.DataFrame(adata.obsm['X_diffmap']).to_csv(\"/galaxy/server/database/objects/c/0/3/dataset_c03abd84-9b4b-40e6-84fa-3dec98c0053e.dat\", sep=\"\\t\", index = False)\n\n",
+    "stderr": "",
+    "job_messages": null,
+    "dependencies": [],
+    "job_metrics": []
+}
diff --git a/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/06d4bb2d4acea493.json b/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/06d4bb2d4acea493.json
@@ -0,0 +1,53 @@
+{
+    "model_class": "Job",
+    "id": "06d4bb2d4acea493",
+    "history_id": "d0ca669cb224825b",
+    "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/anndata_inspect/anndata_inspect/0.7.5+galaxy1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2024-10-12T19:07:47.129837",
+    "update_time": "2024-10-12T19:07:53.129629",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-k2cwx",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "cat '/galaxy/server/database/jobs_directory/000/123/configs/tmp46l9pp4q' && python '/galaxy/server/database/jobs_directory/000/123/configs/tmp46l9pp4q'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "__input_ext": "\"h5ad\"",
+        "dbkey": "\"?\"",
+        "chromInfo": "\"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len\"",
+        "inspect": "{\"__current_case__\": 5, \"info\": \"uns\", \"uns_info\": \"paga\"}"
+    },
+    "inputs": {
+        "input": {
+            "id": "952edab6ea9817bc",
+            "src": "hda",
+            "uuid": "8552671f-873f-4b11-ad96-ae6e3a2d8e4a"
+        }
+    },
+    "outputs": {
+        "uns_paga_connectivities": {
+            "id": "262ea3d251bacc70",
+            "src": "hda",
+            "uuid": "fca31c34-5f13-4d58-b03c-dda5c41216ae"
+        },
+        "uns_paga_connectivities_tree": {
+            "id": "6983c8933186a293",
+            "src": "hda",
+            "uuid": "102272d7-a209-43f0-84e9-7af5e158f0f3"
+        }
+    },
+    "copied_from_job_id": null,
+    "output_collections": {},
+    "tool_stdout": "\n\nimport anndata as ad\n    \n    \nimport pandas as pd\nfrom scipy import io\n\npd.options.display.precision = 15\n\nadata = ad.read('/galaxy/server/database/objects/8/5/5/dataset_8552671f-873f-4b11-ad96-ae6e3a2d8e4a.dat')\n\nio.mmwrite('uns_paga_connectivities.mtx', adata.uns['paga']['connectivities'])\nio.mmwrite('uns_paga_connectivities_tree.mtx', adata.uns['paga']['connectivities_tree'])\n\n",
+    "tool_stderr": "",
+    "job_stdout": null,
+    "job_stderr": null,
+    "stdout": "\n\nimport anndata as ad\n    \n    \nimport pandas as pd\nfrom scipy import io\n\npd.options.display.precision = 15\n\nadata = ad.read('/galaxy/server/database/objects/8/5/5/dataset_8552671f-873f-4b11-ad96-ae6e3a2d8e4a.dat')\n\nio.mmwrite('uns_paga_connectivities.mtx', adata.uns['paga']['connectivities'])\nio.mmwrite('uns_paga_connectivities_tree.mtx', adata.uns['paga']['connectivities_tree'])\n\n",
+    "stderr": "",
+    "job_messages": null,
+    "dependencies": [],
+    "job_metrics": []
+}
diff --git a/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/133be997aacd6b7f.json b/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/133be997aacd6b7f.json
@@ -0,0 +1,45 @@
+{
+    "model_class": "Job",
+    "id": "133be997aacd6b7f",
+    "history_id": "d0ca669cb224825b",
+    "tool_id": "upload1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2024-10-12T18:37:23.622093",
+    "update_time": "2024-10-12T18:37:35.331732",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-ddr6b",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/21/registry.xml' '/galaxy/server/database/jobs_directory/000/21/upload_params.json' '23:/galaxy/server/database/objects/c/f/c/dataset_cfcc3940-e305-4771-823b-9e5fd2501a3d_files:/galaxy/server/database/objects/c/f/c/dataset_cfcc3940-e305-4771-823b-9e5fd2501a3d.dat'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "paramfile": "\"/galaxy/server/database/tmp/upload_params_gu5ufvz_\"",
+        "files_metadata": "{\"__current_case__\": 708, \"file_type\": \"auto\"}",
+        "dbkey": "\"?\"",
+        "force_composite": "\"false\"",
+        "files": "[{\"NAME\": \"t_R2.fastq.gz\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_5w4so0i3\", \"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": "eeff3881d363373b",
+            "src": "hda",
+            "uuid": "cfcc3940-e305-4771-823b-9e5fd2501a3d"
+        }
+    },
+    "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": []
+}
diff --git a/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/3d10804e25ed2096.json b/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/3d10804e25ed2096.json
@@ -0,0 +1,45 @@
+{
+    "model_class": "Job",
+    "id": "3d10804e25ed2096",
+    "history_id": "d0ca669cb224825b",
+    "tool_id": "upload1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2024-10-12T18:42:03.560222",
+    "update_time": "2024-10-12T18:42:15.529861",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-ddhnw",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/35/registry.xml' '/galaxy/server/database/jobs_directory/000/35/upload_params.json' '38:/galaxy/server/database/objects/1/0/e/dataset_10e14c13-9cca-4630-844a-2daaf1d8fa28_files:/galaxy/server/database/objects/1/0/e/dataset_10e14c13-9cca-4630-844a-2daaf1d8fa28.dat'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "paramfile": "\"/galaxy/server/database/tmp/upload_params_6nt36h1c\"",
+        "files_metadata": "{\"__current_case__\": 36, \"file_type\": \"bam\"}",
+        "dbkey": "\"?\"",
+        "force_composite": "\"false\"",
+        "files": "[{\"NAME\": \"samtools_fastx-in1.bam\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_u5silpmw\", \"file_type\": \"\", \"ftp_files\": null, \"space_to_tab\": null, \"to_posix_lines\": \"Yes\", \"url_paste\": null, \"uuid\": null}]",
+        "file_count": "\"auto\"",
+        "file_type": "\"bam\""
+    },
+    "inputs": {},
+    "outputs": {
+        "output0": {
+            "id": "313b958421a98dfe",
+            "src": "hda",
+            "uuid": "10e14c13-9cca-4630-844a-2daaf1d8fa28"
+        }
+    },
+    "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": []
+}
diff --git a/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/3d5de417026b93d8.json b/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/3d5de417026b93d8.json
@@ -0,0 +1,48 @@
+{
+    "model_class": "Job",
+    "id": "3d5de417026b93d8",
+    "history_id": "d0ca669cb224825b",
+    "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/anndata_inspect/anndata_inspect/0.7.5+galaxy1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2024-10-12T18:57:19.503413",
+    "update_time": "2024-10-12T18:57:25.737125",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-x6b42",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "cat '/galaxy/server/database/jobs_directory/000/87/configs/tmp2lsxlxg1' && python '/galaxy/server/database/jobs_directory/000/87/configs/tmp2lsxlxg1'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "__input_ext": "\"h5ad\"",
+        "dbkey": "\"?\"",
+        "chromInfo": "\"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len\"",
+        "inspect": "{\"__current_case__\": 2, \"chunk\": {\"__current_case__\": 0, \"info\": \"random\", \"replace\": true, \"size\": \"1000\"}, \"info\": \"chunk_X\"}"
+    },
+    "inputs": {
+        "input": {
+            "id": "0008496a1db2a997",
+            "src": "hda",
+            "uuid": "fb5f2a9a-436a-4e6c-b792-c9f5d39a99a1"
+        }
+    },
+    "outputs": {
+        "chunk_X": {
+            "id": "b40970be16d75377",
+            "src": "hda",
+            "uuid": "48f0c0df-7661-48aa-819e-d01399bff2cd"
+        }
+    },
+    "copied_from_job_id": null,
+    "output_collections": {},
+    "tool_stdout": "\n\nimport anndata as ad\n    \n    \nimport pandas as pd\nfrom scipy import io\n\npd.options.display.precision = 15\n\nadata = ad.read('/galaxy/server/database/objects/f/b/5/dataset_fb5f2a9a-436a-4e6c-b792-c9f5d39a99a1.dat')\n\nX = adata.chunk_X(select=1000, replace=True)\npd.DataFrame(X).to_csv('/galaxy/server/database/objects/4/8/f/dataset_48f0c0df-7661-48aa-819e-d01399bff2cd.dat', sep='\\t')\n\n",
+    "tool_stderr": "Observation names are not unique. To make them unique, call `.obs_names_make_unique`.\n",
+    "job_stdout": null,
+    "job_stderr": null,
+    "stdout": "\n\nimport anndata as ad\n    \n    \nimport pandas as pd\nfrom scipy import io\n\npd.options.display.precision = 15\n\nadata = ad.read('/galaxy/server/database/objects/f/b/5/dataset_fb5f2a9a-436a-4e6c-b792-c9f5d39a99a1.dat')\n\nX = adata.chunk_X(select=1000, replace=True)\npd.DataFrame(X).to_csv('/galaxy/server/database/objects/4/8/f/dataset_48f0c0df-7661-48aa-819e-d01399bff2cd.dat', sep='\\t')\n\n",
+    "stderr": "Observation names are not unique. To make them unique, call `.obs_names_make_unique`.\n",
+    "job_messages": null,
+    "dependencies": [],
+    "job_metrics": []
+}
diff --git a/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/48a7f612f1f2991d.json b/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/48a7f612f1f2991d.json
@@ -0,0 +1,45 @@
+{
+    "model_class": "Job",
+    "id": "48a7f612f1f2991d",
+    "history_id": "d0ca669cb224825b",
+    "tool_id": "upload1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2024-10-12T18:34:56.265748",
+    "update_time": "2024-10-12T18:35:07.552962",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-cvfk9",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/9/registry.xml' '/galaxy/server/database/jobs_directory/000/9/upload_params.json' '10:/galaxy/server/database/objects/a/7/4/dataset_a74b807a-e3ef-4f2f-9fc6-f2dadc0b2aef_files:/galaxy/server/database/objects/a/7/4/dataset_a74b807a-e3ef-4f2f-9fc6-f2dadc0b2aef.dat'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "paramfile": "\"/galaxy/server/database/tmp/upload_params_3s_8b8cj\"",
+        "files_metadata": "{\"__current_case__\": 325, \"file_type\": \"tabular\"}",
+        "dbkey": "\"?\"",
+        "force_composite": "\"false\"",
+        "files": "[{\"NAME\": \"k12_hypothetical_alt.tabular\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_b3u92a92\", \"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": "d731288c6ccc7636",
+            "src": "hda",
+            "uuid": "a74b807a-e3ef-4f2f-9fc6-f2dadc0b2aef"
+        }
+    },
+    "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": []
+}
diff --git a/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/6db9880a5f5ab1c9.json b/reports/anvil-edge/tool-tests/edge-24-10-12-18-15-1/errors/6db9880a5f5ab1c9.json
@@ -0,0 +1,45 @@
+{
+    "model_class": "Job",
+    "id": "6db9880a5f5ab1c9",
+    "history_id": "d0ca669cb224825b",
+    "tool_id": "upload1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2024-10-12T18:45:49.327929",
+    "update_time": "2024-10-12T18:46:00.352429",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-4sdzv",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/48/registry.xml' '/galaxy/server/database/jobs_directory/000/48/upload_params.json' '61:/galaxy/server/database/objects/6/5/d/dataset_65dcbb46-4e43-4c07-a068-940bf35cb378_files:/galaxy/server/database/objects/6/5/d/dataset_65dcbb46-4e43-4c07-a068-940bf35cb378.dat'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "paramfile": "\"/galaxy/server/database/tmp/upload_params_c381ddre\"",
+        "files_metadata": "{\"__current_case__\": 314, \"file_type\": \"sam\"}",
+        "dbkey": "\"?\"",
+        "force_composite": "\"false\"",
+        "files": "[{\"NAME\": \"bam2fq.001.sam\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_d40lfg2k\", \"file_type\": \"\", \"ftp_files\": null, \"space_to_tab\": null, \"to_posix_lines\": \"Yes\", \"url_paste\": null, \"uuid\": null}]",
+        "file_count": "\"auto\"",
+        "file_type": "\"sam\""
+    },
+    "inputs": {},
+    "outputs": {
+        "output0": {
+            "id": "9979451234c274c3",
+            "src": "hda",
+            "uuid": "65dcbb46-4e43-4c07-a068-940bf35cb378"
+        }
+    },
+    "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": []
+}