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Hi pysam devs!
I really love pysam; I use it in nearly all of my code, so thank you!
I see that htslib requires `libbz2.so.*`, but `FastxFile` doesnt appear to read bzip2-compressed files. Is th…
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Hi,
It would be great with support for zstd compression and decompression of especially FASTQ files, as they can get very big with modern sequencing technologies, and zstd seems more and more like …
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From #44
Samtools, BCFTools, HTSlib: https://github.com/UCL-RITS/rcps-buildscripts/issues/532
Samtools, Bwa, Bedtools, Vcftools, picard, GATK (requested by Biosciences) https://ucldata.atlassia…
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I have a custom hFILE backend over C++ streams that I have written for vg: https://github.com/vgteam/vg/blob/39ac300bb735abf8350e3d2a7ec0356a0742fd56/src/stream/hfile_cppstream.cpp
It has built jus…
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302f14d adds crypto as a dependency for building lumpy_filter, which was removed in OS X 10.11 El Capitan. I'm guessing that it's needed for building htslib, but I'm not 100% sure if crypto is [actual…
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When I follow the readme download to make compile, it reports an error, missing file
configure.ac: error: required file 'config.sub' not found
configure.ac: error: required file 'config.guess' n…
sjads updated
9 months ago
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Would it be possible to add a few fast-starter examples to htslib? Nothing too complicated,
just perhaps 3-5 smallish example for people to quickly test htslib after they have compiled
or installed …
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SAMtools implements `bgzf_useek` that apparently allows seeking bgzf files using offset in uncompressed data. https://github.com/samtools/htslib/blob/84a89da6cf0eb828d39f9a85b82411d58c840e16/htslib/bg…
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### **If the problem is as follows：**
{
make -C src pindel
make[1]: Entering directory '/home/mylinux/Desktop/the_pindel/pindel/src'
make[1]: *** No rule to make target '/home/mylinux/Desktop/pind…
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Hi
I got the same error on pip with two Windows machines:
ERROR: Command errored out with exit status 1:
command: 'c:\users\windows\anaconda3\python.exe' -c 'import sys, setuptools, token…