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xiezhq / ISEScan

A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
Apache License 2.0
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Test data not working #10

Closed janka2012 closed 5 years ago

janka2012 commented 5 years ago

Hi, I am trying to run ISEScan using the testing data you have provided with the tool (NC_012624 genome). Unfortunatelly I am getting this weird error message. Do you have any suggestion what could cause this error? Many thanks.

gi|228288719|ref|NC_012624.1| generated an exception: [Errno 13] Permission denied Begin addNonORFcopy at Fri Apr 5 12:04:45 2019 Traceback (most recent call last): File "isescan.py", line 56, in isPredictSingle(args4isPredictSingle) File "isescan.py", line 21, in isPredictSingle isPredict.isPredict(filelist, path2proteome, path2hmm) File "/mnt/storage-brno6/home/xputer00/ISEScan-1.6/isPredict.py", line 282, in isPredict pred.pred(args4pred) File "/mnt/storage-brno6/home/xputer00/ISEScan-1.6/pred.py", line 2604, in pred mOrfHits = addNonORFcopy(mispairs, mOrfHits) File "/mnt/storage-brno6/home/xputer00/ISEScan-1.6/pred.py", line 1956, in addNonORFcopy if len(copypairs[seqid]) == 0: KeyError: 'gi|228288719|ref|NC_012624.1|'

janka2012 commented 5 years ago

I figured out that blast was missing in my $PATH.