pezmaster31 bamtools issues

pezmaster31 / bamtools

C++ API & command-line toolkit for working with BAM data

MIT License

418 stars 153 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

bamtools_api_export.h not found

#239 wook2014 opened 3 months ago
2
s/t/bamtools_filter.cpp: simplify GetScriptContents().

#238 vpa1977 closed 4 months ago
1
infinite loop in const std::string FilterTool::FilterToolPrivate::GetScriptContents() on s390x, arm, ppc64el

#237 vpa1977 opened 4 months ago
0
BamWriter: use sizeof(uint32_t) increment to swap bytes for big endian architectures

#236 vpa1977 closed 4 months ago
0
bamtools crashes/corrupts output data on s390x

#235 vpa1977 opened 4 months ago
0
heap-buffer-overflow in bam/BamReader_p.cpp:507:30, BamReaderPrivate::LoadReferenceData()

#234 schsiung opened 10 months ago
0
global-buffer-overflow in BamReader_p.cpp:462:23, BamTools::Internal::BamReaderPrivate::LoadNextAlignment(BamTools::BamAlignment&)

#233 schsiung opened 10 months ago
0
Fix clang 17

#232 SoapZA closed 11 months ago
0
s/t/bamtools_filter.cpp: typo reverese/reverse.

#231 emollier closed 11 months ago
2
bamtools random reads are highly skewed towards small chromosomes

#230 benbfly opened 1 year ago
0
Problem with the order of references

#229 johan-gson closed 1 year ago
1
Is there any way to get total number of reads in the alignment bam file?

#228 yazhinia opened 2 years ago
0
git clone not working

#227 marlmatos closed 1 year ago
2
Unnecessary space in BamAlignment object?

#226 rlorigro opened 2 years ago
0
Allow fetching read name field without fetching other string fields?

#225 rlorigro opened 2 years ago
1
allow BamWriter deep copy

#224 glis-glis opened 2 years ago
0
RemoveTag caused an error message in IGV integrated genome viewer

#223 kemin711 closed 2 years ago
1
make Fasta Length available

#222 glis-glis closed 2 years ago
2
exposing function Tell to users

#221 glis-glis closed 2 years ago
0
exposing function Tell to users

#220 glis-glis closed 2 years ago
0
making include folders visible to users

#219 glis-glis closed 2 years ago
2
CMakeLists.txt: CMake >= 3.11

#218 SoapZA closed 3 years ago
0
install error

#217 skytguuu closed 3 years ago
1
install_error_cmake

#216 rhnonaka closed 3 years ago
1
Documentation URL broken

#215 telatin opened 3 years ago
1
Replace `std::exit()` calls by `throw` instead

#214 SoapZA closed 3 years ago
0
Compilation fails with GCC 11

#213 V-Z closed 3 years ago
1
clang-tidy --checks=readability-braces-around-statements

#212 SoapZA closed 3 years ago
0
Warnings

#211 SoapZA closed 3 years ago
0
Simplify CMake

#210 SoapZA closed 3 years ago
0
Switch to Github Actions

#209 SoapZA closed 3 years ago
0
Library exits the program at an error instead of returning an error code

#208 V-Z closed 3 years ago
0
bamtools installation error

#207 jiangshan529 closed 3 years ago
2
Conversion to SAM reports inaccurate tags

#206 morispi closed 3 years ago
4
Quickly jump to a given alignment / equivalent of ftell and fseek for BamReader?

#205 morispi closed 3 years ago
1
Add support to ppc64le (with gcc7 and clang 5.0)

#204 gururajrkatti closed 3 years ago
2
Tiddit ships with a patched version of bamtools

#203 ballaneypranav closed 3 years ago
0
Replace std::endl by "\n" to avoid force flush

#202 bioinfornatics closed 4 years ago
2
compilation error of "bamtools_filter.cpp.o"

#201 mtajhuss closed 4 years ago
6
Heap Overflow in BgzfStream::ReadBlock leading to code execution

#200 ret2fail closed 3 years ago
2
any release soon? use 2.5.1 or master?

#199 santiagorevale closed 3 years ago
5
bamtools split ERROR: could not open basecalls.sort.REF_NM_001019297.2.bam for writing.

#198 weir12 opened 5 years ago
1
Guide to installing bamtools

#197 emmannaemeka closed 3 years ago
3
Remove implicit functions

#196 SoapZA closed 5 years ago
0
Fix strict aliasing UB

#195 SoapZA closed 5 years ago
0
problem compiling bamtools with CMAKE 3.15.3

#194 guptapa closed 5 years ago
3
Testsuite crashes on sparc64 due to incorrect alignment

#193 glaubitz closed 5 years ago
0
bamtools fails to open stdin when running in a Node environment

#192 anderspitman opened 5 years ago
0
feature request: allow custom SM tag in the merged bam header

#191 sclan opened 5 years ago
0
queryBases filter with pattern returns no matching reads

#190 adomingues opened 5 years ago
0