Install pysam for DEXSeq package

TPH

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Join Date: Jan 2016

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#1

Install pysam for DEXSeq package

02-16-2016, 11:28 AM

Hello,
I am trying to use DEXSeq package to access exon expression of my RNA seq data. Since my tophat2 output is in .bam format I need to install pysam package. But I keep getting following error message.
cl : Command line error D8021 : invalid numeric argument '/Wno-error=declaration-after-statement'
error: command 'C:\\Users\\AppData\\Local\\Programs\\Common\\Microsoft\\Visual C++ for Python\\9.0\\VC\\Bin\\cl.exe' failed with exit status 2

Could anyone please help to solve this matter?
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dpryan

Devon Ryan

Join Date: Jul 2011

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02-17-2016, 01:03 AM

I'm not sure that you'll be able to easily get this compiled without using mingw or something like that. As a general rule, it's best to avoid using windows in bioinformatics.
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TPH

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02-17-2016, 08:13 AM

Seems like bad luck. I think I'd be able to move to linux. Thank you very much.
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Install pysam for DEXSeq package

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