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Compile failed with error message like this:
```
htslib/libhts.a(cram_io.o): In function `lzma_mem_deflate':
/home/xiaolicbs/bin/SE-MEI/htslib/cram/cram_io.c:673: undefined reference to `lzma_stre…
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I have tested different versions of pindel to narrow down the read counting issue, it seems the issue has been observed after version v3.3.0
Versions tested and issue reproduced.
pindel_3.10.0 (curr…
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I am getting the following error when I build Nebula i.e. execute `make` in `cpp` directory. I am running on my Macbook, so changed `g++` to `clang++ -Xpreprocessor` and also copied `stdc++.h` to `hts…
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Hi, Cargo is installed and added to path however, on building the `k-mer_distinguishing` tool with `cargo build --release` the package `rust-htslib v0.22.0` fails to build resulting in a error out `e…
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Hi,
I followed the instructions of the README.md file, and I am able to install pysam using pip install. It is complaining about a missing file os/lzma_stub.h. I am doing this on a Mac. Thanks.
…
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samtools 1.17 (using htslib 1.18)
OS: Linux 3.10.0-1160.119.1.el7.x86_64
machine architecture: x86_64
compiler: gcc (GCC) 4.8.5 20150623 (Red Hat 4.8.5-44)
#### Please specify the steps taken…
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The version I use is 1.11
The command I ran is `bcftools view -R .tsv -Oz -o .vcf.gz .vcf.gz`
The vcf file is from simulation data, the golden vcf file. And the input vcf file looks like this:
![…
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I'm running into problems trying to build `htslib-1.11.tar.bz2`:
```
$ wget https://github.com/samtools/htslib/releases/download/1.11/htslib-1.11.tar.bz2
$ tar -xf htslib-1.11.tar.bz2
$ cd htsli…
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Hi Hyun
This looks like a fantastic set of tools. I came across your prepring on demultiplexing "natural barcodes" in single-cell data. This is relevant to some things we're working on, so I'm keen…
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Since PR #600, hfile_libcurl uses the JSON tokeniser, which is private HTSlib functionality declared in _hts_internal.h_. This is a problem when hfile_libcurl is built as a plugin.
Plugins should n…