broadinstitute gamgee issues

broadinstitute / gamgee

A C++14 library for NGS data formats

http://broadinstitute.github.io/gamgee/

MIT License

40 stars 13 forks source link

issues

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Remove links that decayed and turned into Spam

#409 lbergelson closed 5 years ago
0
Batch of multiple feature additions and bug fixes

#408 hwangy opened 7 years ago
2
Fix Travis by moving cmake into a public directory

#407 jmthibault79 closed 9 years ago
1
Development notice

#406 jmthibault79 closed 9 years ago
3
The url in gamgee/.travis_scripts/cmake.sh is invalid now

#405 lucklove closed 9 years ago
2
gamgee example URL not accessible in the developer docs

#404 jjfarrell opened 9 years ago
0
Declaration of move ctor make is sufficient

#403 cppfool closed 9 years ago
2
Added functions in VariantHeader to query field length descriptors and field lengths.

#402 kgururaj closed 9 years ago
1
VariantBuilderMultiSampleVector: add debug-mode bounds checking

#401 droazen closed 10 years ago
1
Enforce relative-path includes

#400 jmthibault79 opened 10 years ago
0
Change includes to relative path

#399 jmthibault79 closed 10 years ago
2
Move files to sam/ and variant/ directories

#398 jmthibault79 closed 10 years ago
9
Fixed reallocation condition in VariantHeaderMerger

#397 kgururaj closed 10 years ago
2
Segfault in VariantHeaderMerger

#396 jmthibault79 closed 10 years ago
1
Prevent GT from being set using generic integer field setters

#395 droazen closed 10 years ago
2
Ensure that VariantBuilderMultiSampleVector works with 0 samples / 0 values per sample

#394 droazen closed 10 years ago
1
Add a method to help with filter/field iteration

#393 jmthibault79 closed 10 years ago
5
Update Gamgee readmee to remove boost build and add cmake.

#392 ldgauthier closed 10 years ago
16
Fixed some whitespace problems

#391 kgururaj closed 10 years ago
2
Consider adding boundary checks to VariantBuilderMultiSampleVector

#390 droazen closed 10 years ago
5
Fix some erroneous includes in merged_vcf_lut.h

#389 droazen closed 10 years ago
1
Update readme for CMake

#388 jmthibault79 closed 10 years ago
0
Prevent GT field from being set using set_integer_individual_field()

#387 droazen closed 10 years ago
2
File iterator increment operators should be consistent with STL

#386 jmthibault79 opened 10 years ago
2
Fix for https://github.com/broadinstitute/foghorn/issues/149

#385 kgururaj closed 10 years ago
10
MVI and RBSVI now output pairs with file indices

#384 jmthibault79 closed 10 years ago
6
Encode genotypes automatically in VariantBuilder instead of requiring the client to call Genotype::encode_genotype()

#383 droazen closed 10 years ago
2
Fix for signed/unsigned comparisons (by Karthik)

#382 jmthibault79 closed 10 years ago
2
Support for BigWig format

#381 lbergelson opened 10 years ago
2
Support for MAF format

#380 lbergelson opened 10 years ago
0
SyncedVariantIterator now outputs "sparse" Variant vectors

#379 jmthibault79 closed 10 years ago
6
VariantBuilderMultiSampleVector: simple class to make it easier to prepare multi-sample data for VariantBuilder

#378 droazen closed 10 years ago
5
Migrate specialized Variant Reader tests to their own files

#377 jmthibault79 closed 10 years ago
8
Added LUT for merged header in MultipleVariantReader

#376 kgururaj closed 10 years ago
15
Made return values for variant field iterators consistent with STL iterators

#375 kgururaj closed 10 years ago
2
Added LUT for merged header in MultipleVariantReader

#374 kgururaj closed 10 years ago
5
Fill holes in Genotype encoding API

#373 droazen opened 10 years ago
7
Improve doxygen documentation for the VariantBuilder API

#372 droazen closed 10 years ago
2
Remove requirement to call Genotype::encode_genotypes() before calling VariantBuilder::set_genotypes()

#371 droazen closed 10 years ago
4
A few small changes through the Ref Block Spilt stack

#370 jmthibault79 closed 10 years ago
2
Prevent vector end values from getting transformed during Genotype encoding, and detect invalid values

#369 droazen closed 10 years ago
1
Void return type for operator ++ and -- in IndividualFieldValueIterator

#368 kgururaj closed 10 years ago
2
Change m_pending_variants to a vector

#367 jmthibault79 closed 10 years ago
4
Fix coveralls / gcov

#366 droazen opened 10 years ago
4
Clean up patch to htslib vcf_parse() and vcf_write() so it can be pull requested to upstream

#365 droazen opened 10 years ago
9
Remove obsolete call in merge_variant_headers()

#364 droazen closed 10 years ago
4
Verify correctness of merge_variant_headers() in variant_utils after htslib rebase

#363 droazen closed 10 years ago
0
Profile SyncedVariantReader

#362 jmthibault79 opened 10 years ago
0
Profile MultipleVariantReader

#361 jmthibault79 opened 10 years ago
0
Consider moving Reference Block Split to SyncedVariantReader instead of MultipleVariantReader

#360 jmthibault79 opened 10 years ago
0