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Here are some potential memory leaks detected with Cppcheck 1.66
~/htslib$ cppcheck --version
Cppcheck 1.66
```
~/htslib$ cppcheck --force . | grep error
[bgzf.c:69]: (error) Memory leak: new_flags
…
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Hello. I'm trying to phase a tetraploid yeast genome but for some reason when I go to run it with whatshap polyphase I get this error message:
```
This is WhatsHap (polyploid) 1.7 running under Py…
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zlib can spot truncated files, as can bgzf, but the code for bcf_read glosses over all such things and treats any error as EOF.
Note this isn't the same issues as https://github.com/samtools/samtool…
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Looking into the bgzf code I see that it supports reading of totally uncompressed data (eg from zcat foo.bam > bar.bam), apparently due to uncompressed bcf taking this form.
Curious as to how well th…
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If I attempt to use --input-fmt-option nthreads=4 when opening a BAM file it tells me it cannot open the file.
```
@ seq3c[samtools.../samtools]; ./samtools calmd --input-fmt-option nthreads=4 /tmp/N…
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htsjdk can neither read nor write BCFs that are block gzipped, even though that seems to be the recommended state based on the BCF spec. It mostly describes BCF as series of gzipped blocks, but also s…
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I have this error when reading multiple vcf.gz files in docker image.
This is part of the code:
```
def fill_feature_mat(rows):
snps_featurs=pd.DataFrame(np.zeros([len(rows),len(my_snp_list)]…
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I cannot install Platypus. There were mistakes with htslib (though I have made all steps from your readme).
I work in docker-container build from Ubuntu 14.04. Inside the container I made commands…
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https://vcftools.github.io/
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(De)compression streams are now supported in all web browsers: https://developer.mozilla.org/en-US/docs/Web/API/DecompressionStream
Pako is pretty fat and slow. There's also [fflate](https://github…