Mercurial > repos > jjjjia > cpo_prediction
changeset 25:573136f142b6 draft
planemo upload
| author | jjjjia |
|---|---|
| date | Wed, 29 Aug 2018 15:10:44 -0400 |
| parents | e5a7da2239af |
| children | 3dc84625d22c |
| files | cpo_galaxy_prediction.py cpo_galaxy_tree.py |
| diffstat | 2 files changed, 5 insertions(+), 5 deletions(-) [+] |
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--- a/cpo_galaxy_prediction.py Wed Aug 29 02:31:49 2018 -0400 +++ b/cpo_galaxy_prediction.py Wed Aug 29 15:10:44 2018 -0400 @@ -694,8 +694,8 @@ #lastly plasmids temp += str(plasmidFamily[list(plasmidFamily.keys())[0]].name) + "\t" - temp += str(plasmidFamily[list(plasmidFamily.keys())[0]].identity) + "\t" - temp += str(plasmidFamily[list(plasmidFamily.keys())[0]].sharedHashes) + "\t" + temp += str(plasmidFamily[list(plasmidFamily.keys())[0]].identity) + "\t" + temp += str(plasmidFamily[list(plasmidFamily.keys())[0]].sharedHashes) + "\t" temp+= str(len(mSuitePlasmids)) + "\t" plasmidID = "" contigs = ""
--- a/cpo_galaxy_tree.py Wed Aug 29 02:31:49 2018 -0400 +++ b/cpo_galaxy_tree.py Wed Aug 29 15:10:44 2018 -0400 @@ -96,8 +96,8 @@ self.MLSTScheme = "?" self.CarbapenemResistanceGenes ="?" self.plasmidBestMatch ="?" - self.plasmididentity =-1 - self.plasmidsharedhashes ="?" + self.plasmididentity =-1 + self.plasmidsharedhashes ="?" self.OtherAMRGenes="?" self.TotalPlasmids = -1 self.plasmids = [] @@ -184,7 +184,7 @@ _results.OtherAMRGenes = (str(r.loc[r.index[i], 'Other AMR Genes'])) _results.TotalPlasmids = int(r.loc[r.index[i], 'Total Plasmids']) _results.plasmidBestMatch = str(r.loc[r.index[i], 'Plasmid Best Match']) - _results.plasmididentity = str(r.loc[r.index[i], 'Plasmid Identity']) + _results.plasmididentity = str(r.loc[r.index[i], 'Plasmid Identity']) _results.plasmidsharedhashes = float(r.loc[r.index[i], 'Plasmid Shared Hash']) for j in range(0,_results.TotalPlasmids): _plasmid = plasmidObj()