User: User000
User000 • 420
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C: Platypus variant caller error
... Hi Amitm, thanks! I was albe to run it with Python2 as well now. It is not working eith python 3 and give me the error above.... also i could be able to download with conda but only with python2... ...
written 5 weeks ago by
User000 • 420
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C: Platypus variant caller error
... I am running it as python Platypus.py ...
written 5 weeks ago by
User000 • 420
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C: Platypus variant caller error
... Thanks for the reply. This is the Platypus.py code. Could it be useful?
#!/usr/bin/env python
"""
Top-level interface to the Platypus tool-set
"""
from __future__ import division
import sys
import runner
################################################ ...
written 5 weeks ago by
User000 • 420
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... Dear all,
I am trying to run Platypus variant caller but it continues to give me the following error:
print "\n\n%s command is not yet implemented\n\n" %(x) ^ SyntaxError: invalid syntax
Could you, please, suggest is there a way to solve this? ...
written 5 weeks ago by
User000 • 420
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... I have the same problem... where you able to solve? ...
written 5 weeks ago by
User000 • 420
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... I solved the problem by going back to the original bgzipped file anmd decompressed it again, now it works... so probably something went wrong when I decompressed the files the first fime. ...
written 6 weeks ago by
User000 • 420
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... actually cht7B_long_arm is the name of my vcf file that does not work... ...
written 6 weeks ago by
User000 • 420
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... I updated the question including all your doubts. ...
written 6 weeks ago by
User000 • 420
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... Dear all,
I split my tetraploid genome into chromosomes and chromosome short arm and long arm in order to do variant calling in parallel. Now I am doing some filtering steps and all the chromosomes worked fine, except one chr7B_long_arm and is giving me the following error:
[W::vcf_parse] Cont ...
written 6 weeks ago by
User000 • 420
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... Dear all,
I am running platypus to do variant calling. As regions I am suing chromosomes short and long arm separately, in order to make the process fast. When I try to merge the output vcf files as the end, I get an error that the contig is not present in the vcf file. Thats because Platypus outpu ...
written 7 weeks ago by
User000 • 420
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