From fff0754a087a476fccad04115c8d3e8d2488613a Mon Sep 17 00:00:00 2001 From: Rauf Salamzade Date: Sun, 26 Nov 2023 16:24:03 -0600 Subject: [PATCH] Update ZOL --- docker/ZOL | 12 +++++++----- 1 file changed, 7 insertions(+), 5 deletions(-) diff --git a/docker/ZOL b/docker/ZOL index a07870aa..75e387e6 100644 --- a/docker/ZOL +++ b/docker/ZOL @@ -61,8 +61,10 @@ if __name__ == '__main__': across homologous/orthologous gene-cluster instance. - abon: assess the novelty/conservation of the BGC-ome of a sample against some database of alternate/target genomes. - - atpoc: assess the similarity/conservation of the temperate phage-ome of a sample against some database of alternate/target genomes. - - apos: assess the similarity/conservation of the plasmid-ome of a sample against some database of alternate/target genomes. + - atpoc: assess the similarity/conservation of the temperate phage-ome of a sample against some database of + alternate/target genomes. + - apos: assess the similarity/conservation of the plasmid-ome of a sample against some database of + alternate/target genomes. Usage examples: @@ -74,10 +76,10 @@ if __name__ == '__main__': with a backslash. E.g.: ./run_ZOL.sh abon -tg Bacillales_Reps_prepTG_Database/ -a Bsubtilis_st168_antiSMASH_Results/ \ - -g Bsubtilis_st168_GECCO_Results/ -o abon_Results/ -c 20 \ - -fo \\"-kpm 0.75 -kpe 1e-10 -e 1e-10 -m 0.5 -dm -sct 0.6\\" + -g Bsubtilis_st168_GECCO_Results/ -o abon_Results/ -c 20 \ + -fo \\"-kpm 0.75 -kpe 1e-10 -e 1e-10 -m 0.5 -dm -sct 0.6\\" """) else: - os.system(' '.join([x.replace('"', '\\"').replace("'", "\\'") for x in args])) \ No newline at end of file + os.system(' '.join([x.replace('"', '\\"').replace("'", "\\'") for x in args]))