libStatGen
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statgen
Useful set of classes for creating statistical genetic programs.
In setTagsFromBuffer(), fixes a leak of two Strings per existing tag.
This PR request is related to #20. This branch was started off of the master branch, with the goal of adding support for parallel bgzip to InputFile. I was successful...
I ran into a number of issues installing libStatGen version 1.0.14 on a CentOS 7 machine. I have the following prerequisite packaged installed via yum: ```BASH zlib.i686 1.2.7-17.el7 zlib.x86_64 1.2.7-17.el7...
https://github.com/statgen/libStatGen/blob/fae4fca874b3b78bf9b61c0eae080c15edd976a4/fastq/FastQFile.cpp#L504 Hi, It says [here](https://www.ncbi.nlm.nih.gov/sra/docs/submitformats/#pairedend-fastq) that SRA supports two interleaved FASTQ formats, the `/1` and `/2` style, but also a newer Illumina style, like `1:Y:18:ATCACG` and `2:Y:18:ATCACG`. We are using...
The 'install' target doesn't install any files. Normally, it is supposed to install into ```$(DESTDIR)$(PREFIX)```.
Hello, Our team has been using Minimac4 to do imputation work. We have found that this program utilizes the `InputFile` from libStatGen to do BGZF I/O. It seems that libStatGen...
Compiling libStatGen doesn't throw any errors, but when compiling fastQValidator, it does: > g++ -std=c++0x -O4 -pipe -Wall -I/tools/src/libStatGen//include -I. -D__ZLIB_AVAILABLE__ -D_FILE_OFFSET_BITS=64 -D__STDC_LIMIT_MACROS -o ../bin/fastQValidator ../obj/FastQValidator.o /tools/src/libStatGen//libStatGen.a -lm -lz >...
I am receiving errors from using readcount on a bam file aligned with bwa mem: ``` 2017-03-31 11:26:05 bam_readcount STDERR ERROR (CigarRoller.cpp:127): Parsing CIGAR - invalid character found with parameter...
Hey there, I am working on a program which both depends on libStatGen and HTSLib. When linking to both libraries I get the following errors: ``` /.../statgen/libStatGen.a(knetfile.o): In function `kftp_connect':...
I tried to retrieve unmapped reads via setting SetReadSection("*",-1,-1) or SetReadSection("",-1,-1), but failed in both ways. I wonder if I used it in a wrong way. I also tested it...
