User: User000

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User000420
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Posts by User000

<prev • 316 results • page 1 of 32 • next >
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Comment: 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 User000420
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Comment: C: Platypus variant caller error
... I am running it as python Platypus.py ...
written 5 weeks ago by User000420
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Comment: 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 User000420
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Platypus variant caller error
... 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? ...
variant calling snp written 5 weeks ago by User000420
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Comment: C: Platypus variantcaller.c:16971 errpr
... I have the same problem... where you able to solve? ...
written 5 weeks ago by User000420
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Comment: C: VCF parse error: Could not add dummy header for contig
... 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 User000420
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Comment: C: VCF parse error: Could not add dummy header for contig
... actually cht7B_long_arm is the name of my vcf file that does not work... ...
written 6 weeks ago by User000420
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Comment: C: VCF parse error: Could not add dummy header for contig
... I updated the question including all your doubts. ...
written 6 weeks ago by User000420
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VCF parse error: Could not add dummy header for contig
... 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 ...
vcf freebayes written 6 weeks ago by User000420
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Platypus variant calling outputs VCFv4.0 with no contig ID
... 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 ...
vcf written 7 weeks ago by User000420

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