-
Notifications
You must be signed in to change notification settings - Fork 1
Expand file tree
/
Copy pathtool_test_output.json
More file actions
1 lines (1 loc) · 15.4 KB
/
tool_test_output.json
File metadata and controls
1 lines (1 loc) · 15.4 KB
1
{"version": "0.1", "tests": [{"id": "functional.test_toolbox.TestForTool_cb_intersite.test_tool_000000", "has_data": true, "data": {"tool_id": "cb_intersite", "tool_version": "0.0.0", "test_index": 0, "time_seconds": 40.76271033287048, "inputs": {"input_dissim": {"src": "hda", "id": "6398fb98376f41a1"}, "input_div": {"src": "hda", "id": "5c86d1bf5aaa13c6"}, "input_ivr": {"src": "hda", "id": "9691f89fbab2bc04"}, "input_qecbnato0": {"src": "hda", "id": "07ef9ecc6a0a7a27"}}, "job": {"model_class": "Job", "id": "77a4092dae9785a1", "state": "ok", "exit_code": 0, "update_time": "2022-11-14T13:47:37.397879", "create_time": "2022-11-14T13:47:22.254141", "galaxy_version": "22.05", "command_version": "", "tool_id": "cb_intersite", "history_id": "07ef9ecc6a0a7a27", "external_id": "31126", "command_line": "Rscript '/home/pndb-cr/.planemo/planemo_tmp_wjfvtf04/intersite.r' '/tmp/tmpfqmug3q4/files/c/f/b/dataset_cfbfc17e-4442-4726-a50f-60ffa38d52a0.dat' '/tmp/tmpfqmug3q4/files/4/3/7/dataset_4376674f-3390-4c27-8118-b136b2c0c73f.dat' '/tmp/tmpfqmug3q4/files/8/2/4/dataset_8247e3af-d3ca-4efa-b944-1c49c3ee7ac0.dat' '/tmp/tmpfqmug3q4/files/7/b/d/dataset_7bd27983-b5f4-4eb2-b625-65f2f166d955.dat' '/home/pndb-cr/.planemo/planemo_tmp_wjfvtf04/freq.RDS' '/home/pndb-cr/.planemo/planemo_tmp_wjfvtf04/obs.RDS' '/home/pndb-cr/.planemo/planemo_tmp_wjfvtf04/list_date_mean.RDS' '/tmp/tmpfqmug3q4/job_working_directory/000/5/outputs/galaxy_dataset_0e8f6cad-bce5-4dbf-8e63-bf83ff8d2fbf.dat' '<galaxy.tools.wrappers.DatasetCollectionWrapper object at 0x7f01947abd10>'", "traceback": null, "params": {"chromInfo": "\"/tmp/tmpfqmug3q4/galaxy-dev/tool-data/shared/ucsc/chrom/?.len\"", "dbkey": "\"?\"", "__input_ext": "\"input\""}, "inputs": {"input_qecbnato0": {"id": "07ef9ecc6a0a7a27", "src": "hda", "uuid": "cfbfc17e-4442-4726-a50f-60ffa38d52a0"}, "input_ivr": {"id": "9691f89fbab2bc04", "src": "hda", "uuid": "4376674f-3390-4c27-8118-b136b2c0c73f"}, "input_dissim": {"id": "6398fb98376f41a1", "src": "hda", "uuid": "8247e3af-d3ca-4efa-b944-1c49c3ee7ac0"}, "input_div": {"id": "5c86d1bf5aaa13c6", "src": "hda", "uuid": "7bd27983-b5f4-4eb2-b625-65f2f166d955"}}, "outputs": {"output_table": {"id": "77a4092dae9785a1", "src": "hda", "uuid": "0e8f6cad-bce5-4dbf-8e63-bf83ff8d2fbf"}, "__new_primary_file_plots|1_ivr__": {"id": "c648bb4f41cfcc48", "src": "hda", "uuid": "0362f7d0-a24f-408e-9e4f-853bea2615d0"}, "__new_primary_file_plots|2_bm_dist__": {"id": "24bb02e12ec1edbe", "src": "hda", "uuid": "9b19a5a2-6f0f-422e-a36b-4c3b18298013"}, "__new_primary_file_plots|2_fs_dist__": {"id": "73129bb164f26989", "src": "hda", "uuid": "86a6a1ff-91df-4914-9f16-c33127203013"}, "__new_primary_file_plots|3_Richness__": {"id": "c27945b2c670ddd1", "src": "hda", "uuid": "7e859f98-6907-423d-917b-1d90a69f4751"}, "__new_primary_file_plots|4_Shannon__": {"id": "46eb9bfa5b115c4f", "src": "hda", "uuid": "e14a0e1c-73c3-4642-a415-fc4827de281f"}, "__new_primary_file_plots|5_Frequentation_2021__": {"id": "174ed7a6f3f5e4b5", "src": "hda", "uuid": "75eca827-28cd-48cf-ac75-e61a38f59d48"}, "__new_primary_file_plots|5_Frequentation_na_2021__": {"id": "c85771c901c5eb12", "src": "hda", "uuid": "c79ccc29-6655-4e89-b623-c41f7cc79d09"}, "__new_primary_file_plots|6_Comportement_pecheurs_2021__": {"id": "bc91eec106d534bf", "src": "hda", "uuid": "1adfb4e9-5467-4801-a183-f593d8d72ab2"}, "__new_primary_file_plots|6_Comportement_pecheurs_na_2021__": {"id": "34d0658b98ceadd9", "src": "hda", "uuid": "22d561bc-548f-4c6d-92c4-7a1f6c4218ec"}, "__new_primary_file_plots|7_oceano_mean_max_2021__": {"id": "964ab197d6146563", "src": "hda", "uuid": "ddb19fe0-d996-42e6-9af3-d41d34662aac"}, "__new_primary_file_plots|8_Accolement__": {"id": "b0246b05c4ede43e", "src": "hda", "uuid": "24526283-27bb-46af-9869-c6b458c86c6e"}}, "output_collections": {"plots": {"id": "07ef9ecc6a0a7a27", "src": "hdca"}}, "tool_stdout": "[1] TRUE\n# A tibble: 23 \u00d7 6\n Site min. max. mean. median. nb\n <fct> <dbl> <dbl> <dbl> <dbl> <int>\n 1 ARMO_Bilfot 0 99 28.0 15 60\n 2 ARMO_IlePlate 0 100 12.5 10 50\n 3 ARMO_Piegu 0 85 24.9 20 60\n 4 ARMO_Verdelet 0 95 19.9 10 60\n 5 BASQ_FlotsBleusZF 0 80 31.1 30 60\n 6 BASQ_FlotsBleusZP 0 100 27 20 90\n 7 BRES_Keraliou 0 100 32.1 27.5 40\n 8 EGMP_BreeBains 0 25 5.66 1.5 54\n 9 EGMP_Chassiron 0 95 13.8 3 44\n10 EGMP_GroinCou 1 98 28.3 25 50\n11 EGMP_PasEmsembert 0 58 13.7 10 30\n12 EGMP_PerreAntiochat 0 75 8.27 3 50\n13 FINS_AnseRoz 5 85 43.9 37.5 22\n14 FINS_Mousterlin 0 70 21.1 15 50\n15 FINS_Quemenes 0 50 3.89 0.5 53\n16 FINS_SeinGoulenez 0 40 7.77 5 41\n17 FINS_SeinKilaourou 0 97.5 10.4 1 55\n18 FINS_StNicolasGlenan 0 70 18.3 10 30\n19 FOUR_PlateauFour 0 100 58.1 62.5 60\n20 GDMO_BegLann 3 100 57.0 67.5 50\n21 GDMO_Locmariaquer 2 100 43.6 20 50\n22 GONB_IlotStMichel 1 97 44.5 30 44\n23 PDMO_Perharidy 10 100 40.9 37.5 50\n[1] \"FINS_AnseRoz\" \"FINS_Quemenes\" \"FINS_SeinGoulenez\" \n[4] \"FINS_SeinKilaourou\"\n# A tibble: 19 \u00d7 6\n Site min. max. mean. median. nb\n <fct> <dbl> <dbl> <dbl> <dbl> <int>\n 1 GONB_IlotStMichel 3 500 129. 85 55\n 2 ARMO_Piegu 0 476 33.0 17.5 122\n 3 ARMO_Verdelet 0 584 83.4 46 146\n 4 ARMO_Bilfot 0 414 36.8 18 128\n 5 ARMO_IlePlate 12 67 32 25 7\n 6 PDMO_Perharidy 0 78 12.4 7 107\n 7 BRES_Keraliou 0 449 60.0 16 82\n 8 FINS_Mousterlin 0 456 60.7 28 115\n 9 FINS_StNicolasGlenan 0 87 24.8 17 32\n10 GDMO_Locmariaquer 0 736 171. 110 154\n11 GDMO_BegLann 0 50 10.1 7.5 104\n12 FOUR_PlateauFour 0 27 6.08 3 13\n13 EGMP_GroinCou 0 548 84.7 39 123\n14 EGMP_PasEmsembert 61 61 61 61 1\n15 EGMP_PerreAntiochat 0 402 55.1 24 149\n16 EGMP_Chassiron 0 83 8.13 1 23\n17 EGMP_BreeBains 0 714 66.1 29 149\n18 BASQ_FlotsBleusZP 0 180 12.0 1 104\n19 BASQ_FlotsBleusZF 0 180 12.4 1 104\n[1] \"FINS_Quemenes\" \"FINS_SeinGoulenez\" \"FINS_SeinKilaourou\"\n[1] \"ARMO_Piegu\" \"FINS_AnseRoz\" \"FINS_Quemenes\" \n[4] \"FINS_SeinGoulenez\" \"FINS_SeinKilaourou\" \"EGMP_Chassiron\" \n[7] \"EGMP_PasEmsembert\" \n# A tibble: 22 \u00d7 2\n Site n\n <fct> <int>\n 1 ARMO_Piegu 1\n 2 FINS_Quemenes 1\n 3 FINS_SeinGoulenez 1\n 4 FINS_SeinKilaourou 1\n 5 EGMP_PasEmsembert 1\n 6 EGMP_Chassiron 1\n 7 ARMO_Bilfot 4\n 8 BASQ_FlotsBleusZP 8\n 9 GDMO_BegLann 13\n10 ARMO_Verdelet 15\n# \u2026 with 12 more rows\n[1] \"ARMO_Piegu\" \"EGMP_Chassiron\" \"EGMP_PasEmsembert\" \n[4] \"FINS_Quemenes\" \"FINS_SeinGoulenez\" \"FINS_SeinKilaourou\"\n[1] \"ARMO_IlePlate.2014.04.29__2\" \"BRES_Keraliou.2014.10.10__6\" \n[3] \"BRES_Keraliou.2016.10.17__5\" \"FOUR_PlateauFour.2015.04.20__2\" \n[5] \"FOUR_PlateauFour.2015.09.28__10\" \"GDMO_BegLann.2015.03.23__3\" \n[7] \"GDMO_BegLann.2015.03.23__8\" \"GDMO_Locmariaquer.2014.10.10__9\"\n[9] \"PDMO_Perharidy.2014.09.09__5\" \n [1] \"param.\" \"Site\" \"2008_s1\" \"2008_s2\" \"2009_s1\" \"2009_s2\" \"2010_s1\"\n [8] \"2010_s2\" \"2011_s1\" \"2011_s2\" \"2012_s2\" \"2013_s1\" \"2013_s2\" \"2014_s1\"\n[15] \"2014_s2\" \"2015_s1\" \"2015_s2\" \"2016_s1\" \"2016_s2\" \"2017_s1\" \"2017_s2\"\n[22] \"2018_s1\" \"2018_s2\" \"2019_s1\" \"2019_s2\" \"2020_s1\" \"2020_s2\" \"2021_s1\"\n[29] \"2021_s2\"\n", "tool_stderr": "`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\nSaving 7 x 7 in image\nSaving 7 x 7 in image\nSaving 7 x 7 in image\nWarning message:\nRemoved 3 rows containing missing values (geom_point). \n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\nSaving 7 x 7 in image\nSaving 7 x 7 in image\nWarning message:\nRemoved 6 rows containing missing values (geom_point). \n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\nSaving 7 x 7 in image\nWarning message:\nRemoved 2 rows containing non-finite values (stat_boxplot). \n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\nSaving 7 x 7 in image\nWarning message:\nRemoved 21071 rows containing non-finite values (stat_boxplot). \n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\nSaving 7 x 7 in image\nWarning message:\nRemoved 1217 rows containing non-finite values (stat_boxplot). \n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\nSaving 7 x 7 in image\nSaving 7 x 7 in image\nSaving 7 x 7 in image\n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\n", "job_stdout": "", "job_stderr": "", "stderr": "`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\nSaving 7 x 7 in image\nSaving 7 x 7 in image\nSaving 7 x 7 in image\nWarning message:\nRemoved 3 rows containing missing values (geom_point). \n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\nSaving 7 x 7 in image\nSaving 7 x 7 in image\nWarning message:\nRemoved 6 rows containing missing values (geom_point). \n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\nSaving 7 x 7 in image\nWarning message:\nRemoved 2 rows containing non-finite values (stat_boxplot). \n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\nSaving 7 x 7 in image\nWarning message:\nRemoved 21071 rows containing non-finite values (stat_boxplot). \n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\nSaving 7 x 7 in image\nWarning message:\nRemoved 1217 rows containing non-finite values (stat_boxplot). \n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\nSaving 7 x 7 in image\nSaving 7 x 7 in image\nSaving 7 x 7 in image\n`summarise()` has grouped output by 'Site'. You can override using the\n`.groups` argument.\n", "stdout": "[1] TRUE\n# A tibble: 23 \u00d7 6\n Site min. max. mean. median. nb\n <fct> <dbl> <dbl> <dbl> <dbl> <int>\n 1 ARMO_Bilfot 0 99 28.0 15 60\n 2 ARMO_IlePlate 0 100 12.5 10 50\n 3 ARMO_Piegu 0 85 24.9 20 60\n 4 ARMO_Verdelet 0 95 19.9 10 60\n 5 BASQ_FlotsBleusZF 0 80 31.1 30 60\n 6 BASQ_FlotsBleusZP 0 100 27 20 90\n 7 BRES_Keraliou 0 100 32.1 27.5 40\n 8 EGMP_BreeBains 0 25 5.66 1.5 54\n 9 EGMP_Chassiron 0 95 13.8 3 44\n10 EGMP_GroinCou 1 98 28.3 25 50\n11 EGMP_PasEmsembert 0 58 13.7 10 30\n12 EGMP_PerreAntiochat 0 75 8.27 3 50\n13 FINS_AnseRoz 5 85 43.9 37.5 22\n14 FINS_Mousterlin 0 70 21.1 15 50\n15 FINS_Quemenes 0 50 3.89 0.5 53\n16 FINS_SeinGoulenez 0 40 7.77 5 41\n17 FINS_SeinKilaourou 0 97.5 10.4 1 55\n18 FINS_StNicolasGlenan 0 70 18.3 10 30\n19 FOUR_PlateauFour 0 100 58.1 62.5 60\n20 GDMO_BegLann 3 100 57.0 67.5 50\n21 GDMO_Locmariaquer 2 100 43.6 20 50\n22 GONB_IlotStMichel 1 97 44.5 30 44\n23 PDMO_Perharidy 10 100 40.9 37.5 50\n[1] \"FINS_AnseRoz\" \"FINS_Quemenes\" \"FINS_SeinGoulenez\" \n[4] \"FINS_SeinKilaourou\"\n# A tibble: 19 \u00d7 6\n Site min. max. mean. median. nb\n <fct> <dbl> <dbl> <dbl> <dbl> <int>\n 1 GONB_IlotStMichel 3 500 129. 85 55\n 2 ARMO_Piegu 0 476 33.0 17.5 122\n 3 ARMO_Verdelet 0 584 83.4 46 146\n 4 ARMO_Bilfot 0 414 36.8 18 128\n 5 ARMO_IlePlate 12 67 32 25 7\n 6 PDMO_Perharidy 0 78 12.4 7 107\n 7 BRES_Keraliou 0 449 60.0 16 82\n 8 FINS_Mousterlin 0 456 60.7 28 115\n 9 FINS_StNicolasGlenan 0 87 24.8 17 32\n10 GDMO_Locmariaquer 0 736 171. 110 154\n11 GDMO_BegLann 0 50 10.1 7.5 104\n12 FOUR_PlateauFour 0 27 6.08 3 13\n13 EGMP_GroinCou 0 548 84.7 39 123\n14 EGMP_PasEmsembert 61 61 61 61 1\n15 EGMP_PerreAntiochat 0 402 55.1 24 149\n16 EGMP_Chassiron 0 83 8.13 1 23\n17 EGMP_BreeBains 0 714 66.1 29 149\n18 BASQ_FlotsBleusZP 0 180 12.0 1 104\n19 BASQ_FlotsBleusZF 0 180 12.4 1 104\n[1] \"FINS_Quemenes\" \"FINS_SeinGoulenez\" \"FINS_SeinKilaourou\"\n[1] \"ARMO_Piegu\" \"FINS_AnseRoz\" \"FINS_Quemenes\" \n[4] \"FINS_SeinGoulenez\" \"FINS_SeinKilaourou\" \"EGMP_Chassiron\" \n[7] \"EGMP_PasEmsembert\" \n# A tibble: 22 \u00d7 2\n Site n\n <fct> <int>\n 1 ARMO_Piegu 1\n 2 FINS_Quemenes 1\n 3 FINS_SeinGoulenez 1\n 4 FINS_SeinKilaourou 1\n 5 EGMP_PasEmsembert 1\n 6 EGMP_Chassiron 1\n 7 ARMO_Bilfot 4\n 8 BASQ_FlotsBleusZP 8\n 9 GDMO_BegLann 13\n10 ARMO_Verdelet 15\n# \u2026 with 12 more rows\n[1] \"ARMO_Piegu\" \"EGMP_Chassiron\" \"EGMP_PasEmsembert\" \n[4] \"FINS_Quemenes\" \"FINS_SeinGoulenez\" \"FINS_SeinKilaourou\"\n[1] \"ARMO_IlePlate.2014.04.29__2\" \"BRES_Keraliou.2014.10.10__6\" \n[3] \"BRES_Keraliou.2016.10.17__5\" \"FOUR_PlateauFour.2015.04.20__2\" \n[5] \"FOUR_PlateauFour.2015.09.28__10\" \"GDMO_BegLann.2015.03.23__3\" \n[7] \"GDMO_BegLann.2015.03.23__8\" \"GDMO_Locmariaquer.2014.10.10__9\"\n[9] \"PDMO_Perharidy.2014.09.09__5\" \n [1] \"param.\" \"Site\" \"2008_s1\" \"2008_s2\" \"2009_s1\" \"2009_s2\" \"2010_s1\"\n [8] \"2010_s2\" \"2011_s1\" \"2011_s2\" \"2012_s2\" \"2013_s1\" \"2013_s2\" \"2014_s1\"\n[15] \"2014_s2\" \"2015_s1\" \"2015_s2\" \"2016_s1\" \"2016_s2\" \"2017_s1\" \"2017_s2\"\n[22] \"2018_s1\" \"2018_s2\" \"2019_s1\" \"2019_s2\" \"2020_s1\" \"2020_s2\" \"2021_s1\"\n[29] \"2021_s2\"\n", "job_messages": [], "dependencies": [], "user_email": "test@bx.psu.edu", "job_metrics": []}, "status": "success"}}], "summary": {"num_tests": 1, "num_failures": 0, "num_errors": 0, "num_skips": 0}, "exit_code": 0}