Updating anvil-edge README for edge-25-01-13-18-19-1

anvilproject · Jan 13, 2025 · be3f64f · be3f64f
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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
@@ -1,10 +1,10 @@
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-        "date1": "Mon Jan 06 18:32:53 2025",
-        "tools": "https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-25-01-06-18-18-1/tools.yml",
-        "run2": "https://htmlpreview.github.io/?https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-24-12-30-18-17-1/results.html",
-        "date2": "Mon Dec 30 18:33:15 2024"
+        "run1": "https://htmlpreview.github.io/?https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/results.html",
+        "date1": "Mon Jan 13 18:34:49 2025",
+        "tools": "https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/tools.yml",
+        "run2": "https://htmlpreview.github.io/?https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-25-01-06-18-18-1/results.html",
+        "date2": "Mon Jan 06 18:32:53 2025"
     },
     "2": {
         "run1": "https://htmlpreview.github.io/?https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-25-01-07-06-12-1/results.html",

diff --git a/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/chunk.json b/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/chunk.json
@@ -0,0 +1,7 @@
+{
+    "1": {
+        "run1": "https://htmlpreview.github.io/?https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/results.html",
+        "date1": "Mon Jan 13 18:34:49 2025",
+        "tools": "https://github.com/anvilproject/galaxy-tests/blob/main/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/tools.yml"
+    }
+}
diff --git a/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/chunk.txt b/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/chunk.txt
@@ -0,0 +1,22 @@
+-t spades --tool-version b8c00ce5dfa0
+-t deeptools_bam_pe_fragmentsize --tool-version 62eb6d63f582
+-t fastq_filter --tool-version 81a9090d6df3
+-t trimmomatic --tool-version d94aff5ee623
+-t mummer_nucmer --tool-version 636b049e6141
+-t poretools_occupancy --tool-version 338d15b8d6fb
+-t salmon --tool-version cc05793bb896
+-t samtools_reheader --tool-version 30388d878f81
+-t samtools_bedcov --tool-version 9149ad20699a
+-t music_compare --tool-version 4447ed460308
+-t dropletutils_empty_drops --tool-version fa662ca7ae7f
+-t scater_plot_dist_scatter --tool-version 2e41b35b5bdd
+-t scater_plot_dist_scatter --tool-version ef4c80837bc5
+-t retrieve_scxa --tool-version 72b6e1747e37
+-t filter_tabular --tool-version 6544e4b87a4f
+-t gff3_rebase --tool-version 238981ed43b7
+-t snpeff --tool-version 74aebe30fb52
+-t snpeff --tool-version cfcf33df7fc0
+-t bcftools_mpileup --tool-version 0dbff46d5a1b
+-t bcftools_filter --tool-version 6ca7c55a27e8
+-t vcfcombine --tool-version 1f0ba67cc85a
+-t vcffilter --tool-version fa24bf0598f4
diff --git a/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/errors/224143c8092ad8b3.json b/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/errors/224143c8092ad8b3.json
@@ -0,0 +1,73 @@
+{
+    "model_class": "Job",
+    "id": "224143c8092ad8b3",
+    "history_id": "1dd064f908c436a7",
+    "tool_id": "toolshed.g2.bx.psu.edu/repos/pjbriggs/trimmomatic/trimmomatic/0.39+galaxy2",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2025-01-13T18:58:52.217800",
+    "update_time": "2025-01-13T18:58:56.622909",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-68nxr",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "if [ -z \"$TRIMMOMATIC_JAR_PATH\" ]; then export TRIMMOMATIC_JAR_PATH=$(dirname $(readlink -e $(which trimmomatic))); fi && if [ -z \"$TRIMMOMATIC_ADAPTERS_PATH\" ]; then export TRIMMOMATIC_ADAPTERS_PATH=$(dirname $(readlink -e $(which trimmomatic)))/adapters; fi && ln -s '/galaxy/server/database/objects/f/1/c/dataset_f1c562dd-719d-4642-8acd-001292215225.dat' fastq_r1.'fastqsolexa' && ln -s '/galaxy/server/database/objects/6/0/0/dataset_6001cde4-4dfb-4677-9e64-986907c7d24f.dat' fastq_r2.'fastqsolexa' && java ${_JAVA_OPTIONS:--Xmx8G} -jar $TRIMMOMATIC_JAR_PATH/trimmomatic.jar PE -threads ${GALAXY_SLOTS:-6} fastq_r1.'fastqsolexa' fastq_r2.'fastqsolexa' fastq_out_r1_paired.'fastqsolexa' fastq_out_r1_unpaired.'fastqsolexa' fastq_out_r2_paired.'fastqsolexa' fastq_out_r2_unpaired.'fastqsolexa' SLIDINGWINDOW:4:20 2>&1 | tee trimmomatic.log && if [ -z \"$(tail -1 trimmomatic.log | grep \"Completed successfully\")\" ]; then echo \"Trimmomatic did not finish successfully\" >&2 ; exit 1 ; fi && mv fastq_out_r1_paired.'fastqsolexa' '/galaxy/server/database/objects/1/2/7/dataset_12737df3-3b38-41f0-b842-dfb8633f2bee.dat' && mv fastq_out_r1_unpaired.'fastqsolexa' '/galaxy/server/database/objects/1/1/c/dataset_11cce99f-2474-4af0-ac72-b07327bb3901.dat' && mv fastq_out_r2_paired.'fastqsolexa' '/galaxy/server/database/objects/f/4/7/dataset_f47e99a9-cd9e-4a96-8509-4cbbe7be6211.dat' && mv fastq_out_r2_unpaired.'fastqsolexa' '/galaxy/server/database/objects/2/6/e/dataset_26e31b8f-e2bb-45b1-a3d6-d74361975dea.dat'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "__input_ext": "\"fastqsolexa\"",
+        "dbkey": "\"?\"",
+        "chromInfo": "\"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len\"",
+        "output_err": "false",
+        "output_logs": "false",
+        "quality_score": null,
+        "operations": "[{\"__index__\": 0, \"operation\": {\"__current_case__\": 0, \"name\": \"SLIDINGWINDOW\", \"required_quality\": \"20\", \"window_size\": \"4\"}}]",
+        "illuminaclip": "{\"__current_case__\": 1, \"do_illuminaclip\": \"no\"}",
+        "readtype": "{\"__current_case__\": 1, \"fastq_r1_in\": {\"values\": [{\"id\": 135, \"src\": \"hda\"}]}, \"fastq_r2_in\": {\"values\": [{\"id\": 136, \"src\": \"hda\"}]}, \"single_or_paired\": \"pair_of_files\"}"
+    },
+    "inputs": {
+        "readtype|fastq_r1_in": {
+            "id": "a965e1ea8d794346",
+            "src": "hda",
+            "uuid": "f1c562dd-719d-4642-8acd-001292215225"
+        },
+        "readtype|fastq_r2_in": {
+            "id": "f047106a7d972082",
+            "src": "hda",
+            "uuid": "6001cde4-4dfb-4677-9e64-986907c7d24f"
+        }
+    },
+    "outputs": {
+        "fastq_out_r1_paired": {
+            "id": "b7f4ce6192015342",
+            "src": "hda",
+            "uuid": "12737df3-3b38-41f0-b842-dfb8633f2bee"
+        },
+        "fastq_out_r2_paired": {
+            "id": "99308a9dabcefb7e",
+            "src": "hda",
+            "uuid": "f47e99a9-cd9e-4a96-8509-4cbbe7be6211"
+        },
+        "fastq_out_r1_unpaired": {
+            "id": "3fa23af6e2235f95",
+            "src": "hda",
+            "uuid": "11cce99f-2474-4af0-ac72-b07327bb3901"
+        },
+        "fastq_out_r2_unpaired": {
+            "id": "b629d28e8c3c8e02",
+            "src": "hda",
+            "uuid": "26e31b8f-e2bb-45b1-a3d6-d74361975dea"
+        }
+    },
+    "copied_from_job_id": null,
+    "output_collections": {},
+    "tool_stdout": "Picked up _JAVA_OPTIONS: -Xmx12G -Xms1G\nTrimmomaticPE: Started with arguments:\n -threads 6 fastq_r1.fastqsolexa fastq_r2.fastqsolexa fastq_out_r1_paired.fastqsolexa fastq_out_r1_unpaired.fastqsolexa fastq_out_r2_paired.fastqsolexa fastq_out_r2_unpaired.fastqsolexa SLIDINGWINDOW:4:20\nQuality encoding detected as phred64\nInput Read Pairs: 10 Both Surviving: 8 (80.00%) Forward Only Surviving: 0 (0.00%) Reverse Only Surviving: 2 (20.00%) Dropped: 0 (0.00%)\nTrimmomaticPE: Completed successfully\n",
+    "tool_stderr": "",
+    "job_stdout": null,
+    "job_stderr": null,
+    "stdout": "Picked up _JAVA_OPTIONS: -Xmx12G -Xms1G\nTrimmomaticPE: Started with arguments:\n -threads 6 fastq_r1.fastqsolexa fastq_r2.fastqsolexa fastq_out_r1_paired.fastqsolexa fastq_out_r1_unpaired.fastqsolexa fastq_out_r2_paired.fastqsolexa fastq_out_r2_unpaired.fastqsolexa SLIDINGWINDOW:4:20\nQuality encoding detected as phred64\nInput Read Pairs: 10 Both Surviving: 8 (80.00%) Forward Only Surviving: 0 (0.00%) Reverse Only Surviving: 2 (20.00%) Dropped: 0 (0.00%)\nTrimmomaticPE: Completed successfully\n",
+    "stderr": "",
+    "job_messages": null,
+    "dependencies": [],
+    "job_metrics": []
+}
diff --git a/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/errors/31ab376c96e45e70.json b/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/errors/31ab376c96e45e70.json
@@ -0,0 +1,45 @@
+{
+    "model_class": "Job",
+    "id": "31ab376c96e45e70",
+    "history_id": "1dd064f908c436a7",
+    "tool_id": "upload1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2025-01-13T18:37:53.838459",
+    "update_time": "2025-01-13T18:38:05.853232",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-ltdlm",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/7/registry.xml' '/galaxy/server/database/jobs_directory/000/7/upload_params.json' '18:/galaxy/server/database/objects/9/3/2/dataset_932a4bdc-629c-4c77-b3d3-b3b2aa06f0da_files:/galaxy/server/database/objects/9/3/2/dataset_932a4bdc-629c-4c77-b3d3-b3b2aa06f0da.dat'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "paramfile": "\"/galaxy/server/database/tmp/upload_params_fnheu5gh\"",
+        "files_metadata": "{\"__current_case__\": 708, \"file_type\": \"auto\"}",
+        "dbkey": "\"?\"",
+        "force_composite": "\"false\"",
+        "files": "[{\"NAME\": \"ecoli_1K_2.fastq.gz\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_zq3fnj53\", \"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": "7f75a6011b1ca177",
+            "src": "hda",
+            "uuid": "932a4bdc-629c-4c77-b3d3-b3b2aa06f0da"
+        }
+    },
+    "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-25-01-13-18-19-1/errors/5e96d1ea9881d39e.json b/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/errors/5e96d1ea9881d39e.json
@@ -0,0 +1,45 @@
+{
+    "model_class": "Job",
+    "id": "5e96d1ea9881d39e",
+    "history_id": "1dd064f908c436a7",
+    "tool_id": "upload1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2025-01-13T18:59:34.900622",
+    "update_time": "2025-01-13T18:59:46.493174",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-jztbb",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/83/registry.xml' '/galaxy/server/database/jobs_directory/000/83/upload_params.json' '144:/galaxy/server/database/objects/f/9/a/dataset_f9a01e60-842c-4a09-a157-b7fa88605e5f_files:/galaxy/server/database/objects/f/9/a/dataset_f9a01e60-842c-4a09-a157-b7fa88605e5f.dat'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "paramfile": "\"/galaxy/server/database/tmp/upload_params_5y3mb_ef\"",
+        "files_metadata": "{\"__current_case__\": 81, \"file_type\": \"fastqsanger\"}",
+        "dbkey": "\"?\"",
+        "force_composite": "\"false\"",
+        "files": "[{\"NAME\": \"Illumina_SG_R2.fastq\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_mg6c6u_1\", \"file_type\": \"\", \"ftp_files\": null, \"space_to_tab\": null, \"to_posix_lines\": \"Yes\", \"url_paste\": null, \"uuid\": null}]",
+        "file_count": "\"auto\"",
+        "file_type": "\"fastqsanger\""
+    },
+    "inputs": {},
+    "outputs": {
+        "output0": {
+            "id": "3a3d376d20ad6b44",
+            "src": "hda",
+            "uuid": "f9a01e60-842c-4a09-a157-b7fa88605e5f"
+        }
+    },
+    "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-25-01-13-18-19-1/errors/676425650d804177.json b/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/errors/676425650d804177.json
@@ -0,0 +1,45 @@
+{
+    "model_class": "Job",
+    "id": "676425650d804177",
+    "history_id": "1dd064f908c436a7",
+    "tool_id": "upload1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2025-01-13T19:20:12.420880",
+    "update_time": "2025-01-13T19:20:24.850350",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-tmcqk",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/157/registry.xml' '/galaxy/server/database/jobs_directory/000/157/upload_params.json' '231:/galaxy/server/database/objects/f/d/b/dataset_fdb3430f-c5c7-4156-84ad-b2cf11734341_files:/galaxy/server/database/objects/f/d/b/dataset_fdb3430f-c5c7-4156-84ad-b2cf11734341.dat'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "paramfile": "\"/galaxy/server/database/tmp/upload_params_yu0oh33e\"",
+        "files_metadata": "{\"__current_case__\": 111, \"file_type\": \"loom\"}",
+        "dbkey": "\"?\"",
+        "force_composite": "\"false\"",
+        "files": "[{\"NAME\": \"scater_qcready.loom\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_5b3m8esi\", \"file_type\": \"\", \"ftp_files\": null, \"space_to_tab\": null, \"to_posix_lines\": \"Yes\", \"url_paste\": null, \"uuid\": null}]",
+        "file_count": "\"auto\"",
+        "file_type": "\"loom\""
+    },
+    "inputs": {},
+    "outputs": {
+        "output0": {
+            "id": "8a394d5bc1854f7c",
+            "src": "hda",
+            "uuid": "fdb3430f-c5c7-4156-84ad-b2cf11734341"
+        }
+    },
+    "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-25-01-13-18-19-1/errors/6851b1ad83d593e2.json b/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/errors/6851b1ad83d593e2.json
@@ -0,0 +1,45 @@
+{
+    "model_class": "Job",
+    "id": "6851b1ad83d593e2",
+    "history_id": "1dd064f908c436a7",
+    "tool_id": "upload1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2025-01-13T18:51:43.458337",
+    "update_time": "2025-01-13T18:51:54.764587",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-s5m9d",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/53/registry.xml' '/galaxy/server/database/jobs_directory/000/53/upload_params.json' '100:/galaxy/server/database/objects/5/7/7/dataset_5770b32f-c872-4801-a7df-4031cb1c7499_files:/galaxy/server/database/objects/5/7/7/dataset_5770b32f-c872-4801-a7df-4031cb1c7499.dat'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "paramfile": "\"/galaxy/server/database/tmp/upload_params_9suras6p\"",
+        "files_metadata": "{\"__current_case__\": 81, \"file_type\": \"fastqsanger\"}",
+        "dbkey": "\"?\"",
+        "force_composite": "\"false\"",
+        "files": "[{\"NAME\": \"sanger_full_range_original_sanger.fastqsanger\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_whn8l73l\", \"file_type\": \"\", \"ftp_files\": null, \"space_to_tab\": null, \"to_posix_lines\": \"Yes\", \"url_paste\": null, \"uuid\": null}]",
+        "file_count": "\"auto\"",
+        "file_type": "\"fastqsanger\""
+    },
+    "inputs": {},
+    "outputs": {
+        "output0": {
+            "id": "374d39d7587f2889",
+            "src": "hda",
+            "uuid": "5770b32f-c872-4801-a7df-4031cb1c7499"
+        }
+    },
+    "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-25-01-13-18-19-1/errors/74ef72fd9555f689.json b/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/errors/74ef72fd9555f689.json
diff --git a/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/errors/847880c1047963d6.json b/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/errors/847880c1047963d6.json
@@ -0,0 +1,45 @@
+{
+    "model_class": "Job",
+    "id": "847880c1047963d6",
+    "history_id": "1dd064f908c436a7",
+    "tool_id": "upload1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2025-01-13T19:24:56.345369",
+    "update_time": "2025-01-13T19:25:06.986099",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-x6bzb",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/169/registry.xml' '/galaxy/server/database/jobs_directory/000/169/upload_params.json' '246:/galaxy/server/database/objects/6/8/7/dataset_6877098f-1ab3-4baf-a385-d539cb79dc3a_files:/galaxy/server/database/objects/6/8/7/dataset_6877098f-1ab3-4baf-a385-d539cb79dc3a.dat'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "paramfile": "\"/galaxy/server/database/tmp/upload_params_8zicfmv4\"",
+        "files_metadata": "{\"__current_case__\": 325, \"file_type\": \"tabular\"}",
+        "dbkey": "\"?\"",
+        "force_composite": "\"false\"",
+        "files": "[{\"NAME\": \"math_input.tsv\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_ccum6yy8\", \"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": "8fba9408ba6f2595",
+            "src": "hda",
+            "uuid": "6877098f-1ab3-4baf-a385-d539cb79dc3a"
+        }
+    },
+    "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-25-01-13-18-19-1/errors/9394c0a66b85cc15.json b/reports/anvil-edge/tool-tests/edge-25-01-13-18-19-1/errors/9394c0a66b85cc15.json
@@ -0,0 +1,45 @@
+{
+    "model_class": "Job",
+    "id": "9394c0a66b85cc15",
+    "history_id": "1dd064f908c436a7",
+    "tool_id": "upload1",
+    "state": "error",
+    "exit_code": null,
+    "create_time": "2025-01-13T18:49:32.862998",
+    "update_time": "2025-01-13T18:49:44.464226",
+    "galaxy_version": "24.1",
+    "external_id": "gxy-qv22d",
+    "handler": null,
+    "job_runner_name": null,
+    "command_line": "python '/galaxy/server/database/tools/data_source/upload.py' '/galaxy/server' '/galaxy/server/database/jobs_directory/000/46/registry.xml' '/galaxy/server/database/jobs_directory/000/46/upload_params.json' '93:/galaxy/server/database/objects/3/a/7/dataset_3a70546c-6c61-4ce1-be57-ef161c26cc4c_files:/galaxy/server/database/objects/3/a/7/dataset_3a70546c-6c61-4ce1-be57-ef161c26cc4c.dat'",
+    "user_email": "tests@fake.org",
+    "command_version": null,
+    "params": {
+        "paramfile": "\"/galaxy/server/database/tmp/upload_params_msjx5w2s\"",
+        "files_metadata": "{\"__current_case__\": 36, \"file_type\": \"bam\"}",
+        "dbkey": "\"?\"",
+        "force_composite": "\"false\"",
+        "files": "[{\"NAME\": \"bowtie2 test1.bam\", \"__index__\": 0, \"auto_decompress\": \"Yes\", \"dbkey\": \"\", \"file_data\": \"/galaxy/server/database/tmp/upload_file_data_8k47pcg2\", \"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": "967917bed5b8f976",
+            "src": "hda",
+            "uuid": "3a70546c-6c61-4ce1-be57-ef161c26cc4c"
+        }
+    },
+    "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": []
+}