diff test-data/staramr/settings.txt @ 0:6e868bf6c38e draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/tooldistillator commit 491c6fc94851aab68cb7529dd6b6fbc6caa84bf2

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/staramr/settings.txt	Tue Apr 30 08:42:33 2024 +0000
@@ -0,0 +1,23 @@
+command_line                  = /home/piemari/apps/conda/envs/amr/bin/staramr search --nprocs 4 --no-exclude-genes --pid-threshold 95 --percent-length-overlap-resfinder 90 --percent-length-overlap-pointfinder 90 --percent-length-overlap-plasmidfinder 90 --output-dir /storage/scratch/piemari/60579242/staramr/staramr_10_Enterococcus_faecalis_S17_L001 /storage/scratch/piemari/60579242/staramr/10_Enterococcus_faecalis_S17_L001.fasta
+version                       = 0.9.1
+start_time                    = 2023-02-13 14:26:11
+end_time                      = 2023-02-13 14:26:13
+total_minutes                 = 0.04
+resfinder_db_dir              = /home/piemari/apps/conda/envs/amr/lib/python3.11/site-packages/staramr/databases/data/update/resfinder
+resfinder_db_url              = https://bitbucket.org/genomicepidemiology/resfinder_db.git
+resfinder_db_commit           = 23661dbb58797b302464855611223b7ba4a21f75
+resfinder_db_date             = Fri, 02 Dec 2022 11:36
+pointfinder_db_dir            = /home/piemari/apps/conda/envs/amr/lib/python3.11/site-packages/staramr/databases/data/update/pointfinder
+pointfinder_db_url            = https://bitbucket.org/genomicepidemiology/pointfinder_db.git
+pointfinder_db_commit         = a25ac32c7a7a904dff14ffbd17e3b3f7cd732954
+pointfinder_db_date           = Fri, 28 Oct 2022 10:19
+pointfinder_organisms_all     = campylobacter, enterococcus_faecalis, enterococcus_faecium, escherichia_coli, helicobacter_pylori, klebsiella, mycobacterium_tuberculosis, neisseria_gonorrhoeae, plasmodium_falciparum, salmonella, staphylococcus_aureus
+pointfinder_organisms_valid   = campylobacter, enterococcus_faecalis, enterococcus_faecium, escherichia_coli, helicobacter_pylori, salmonella
+plasmidfinder_db_dir          = /home/piemari/apps/conda/envs/amr/lib/python3.11/site-packages/staramr/databases/data/update/plasmidfinder
+plasmidfinder_db_url          = https://bitbucket.org/genomicepidemiology/plasmidfinder_db.git
+plasmidfinder_db_commit       = b1c9ddac0e618e07630a94452293d84f296a6de5
+plasmidfinder_db_date         = Thu, 12 Jan 2023 12:51
+mlst_version                  = 2.23.0
+pointfinder_organism          = None
+pointfinder_gene_drug_version = 072621.1
+resfinder_gene_drug_version   = 072621