Timeline
Feb 17, 2023:
- 4:12 AM Changeset [4318] by
- make test compile on CentOS.
- 2:43 AM Changeset [4317] by
- bumping version to 0.20.3pre
- 2:40 AM Changeset [4316] by
- Merged release 0.20.2 into trunk
- 2:36 AM Milestone yat 0.20.2 completed
- Fixes a bug in function VCF::Info::set (bug #995)
- 2:35 AM SubversionCheckout edited by
- yat 0.20.2 release (diff)
- 2:35 AM WikiStart edited by
- yat 0.20.2 release (diff)
- 2:32 AM Changeset [4315] by
- tagging version 0.20.2
- 2:13 AM Changeset [4314] by
- update copyright years
- 2:07 AM Changeset [4313] by
- Preparing release 0.20.2
- 12:47 AM Changeset [4312] by
- when tests create write-protected files the removal in 'init.sh' would …
Feb 11, 2023:
- 10:10 AM Ticket #996 (behaviour of VCF::add functions when key already exists) created by
- What is the wanted/expected behaviour? Append (add) the passed value …
- 3:16 AM Ticket #995 (VCF::Info::set not same result as VCF::INFO::remove + VCF::Info::add) closed by
- fixed: In 4311: […]
- 3:16 AM Changeset [4311] by
- fixes #995. If key is present, clear the value before appending the …
- 2:47 AM Changeset [4310] by
- refs #995. Add tests for the case.
Feb 10, 2023:
- 8:15 AM Ticket #995 (VCF::Info::set not same result as VCF::INFO::remove + VCF::Info::add) created by
- 3:58 AM Changeset [4309] by
- bump version to 0.20.2pre
- 3:40 AM Changeset [4308] by
- merge release 0.20.1 into trunk.
- 3:20 AM Milestone yat 0.20.1 completed
- This is a bugfix release. It fixes a major bug in …
- 3:19 AM SubversionCheckout edited by
- yat 0.20.1 release (diff)
- 3:18 AM WikiStart edited by
- yat 0.20.1 release (diff)
- 3:16 AM Changeset [4307] by
- tagging version 0.20.1
- 2:55 AM Changeset [4306] by
- update copyright years
- 2:54 AM Changeset [4305] by
- Preparing release 0.20.1
Feb 9, 2023:
- 7:38 AM Changeset [4304] by
- mention #994 in NEWS
- 7:36 AM Ticket #994 (VcfHeader::add_program_command does not add Date as promised in doc) closed by
- fixed: In 4303: […]
- 7:36 AM Changeset [4303] by
- fixes #994
- 7:16 AM Changeset [4302] by
- add test for bug in VcfHeader? (refs #994).
- 7:11 AM Ticket #994 (VcfHeader::add_program_command does not add Date as promised in doc) created by
- The function inserts a line such as […]
Feb 8, 2023:
- 1:36 AM Changeset [4301] by
- docs: fix typo
Feb 7, 2023:
- 6:44 AM Ticket #993 (Aligner::needleman_wunsch is incorrect) closed by
- fixed: In 4300: […]
- 6:44 AM Changeset [4300] by
- Fixed a bug in NeedlemanWunsch? functions caused by an unsigned integer …
- 5:56 AM Ticket #993 (Aligner::needleman_wunsch is incorrect) created by
- Self-self alignemt of a heptamer for example results in a score = …
Feb 5, 2023:
- 8:09 AM Changeset [4299] by
- include config.h in all source files
- 8:06 AM Changeset [4298] by
- fix typo in output variable causing empty output
Feb 4, 2023:
- 12:01 PM Changeset [4297] by
- simplifiy code, avoid home-brewed looping, and use blas.
- 10:25 AM Changeset [4296] by
- get rid of superfluous temporary matrices U and V; avoid allocating …
- 9:58 AM Changeset [4295] by
- avoid loops when functionality exists (which likely is faster).
- 7:18 AM Changeset [4294] by
- simplify code
- 5:58 AM Changeset [4293] by
- minor style changes
- 5:57 AM Changeset [4292] by
- prefer BLAS multiplication
- 12:27 AM Changeset [4291] by
- prefer blast rather than home brewed looping although the latter used …
Feb 3, 2023:
- 4:17 PM Changeset [4290] by
- add same interface for program_group as for read_group in class BamHeader?.
Feb 2, 2023:
- 3:19 AM Ticket #988 (ln(sum(exp(x))) closed by
- fixed: In 4289: […]
- 3:19 AM Changeset [4289] by
- add a class Likelihood; closes #988
Jan 31, 2023:
- 5:04 AM Changeset [4288] by
- fix #include (so it compiles in VPATH build)
Jan 30, 2023:
- 7:36 AM Changeset [4287] by
- add class for KalmanFilter?
- 3:08 AM Changeset [4286] by
- provide the SVD inverse function as a member function so the …
- 2:02 AM Changeset [4285] by
- simplify code with test code recently added to.
- 2:00 AM Changeset [4284] by
- merge test from 0.20.x branch
- 1:42 AM Ticket #992 (inverse_svd gives wrong result) closed by
- invalid
- 1:42 AM Ticket #992 (inverse_svd gives wrong result) reopened by
- 1:40 AM Ticket #992 (inverse_svd gives wrong result) closed by
- fixed: In 4283: […]
- 1:40 AM Changeset [4283] by
- fix spurious test failure due to numerical problems when taking …
Jan 29, 2023:
- 10:37 PM Changeset [4282] by
- refs #992; add test for bug.
- 9:38 AM Ticket #992 (inverse_svd gives wrong result) created by
- By definition the inverse matrix times the input matrix should yeild …
- 1:16 AM Ticket #983 (Multivariate Gaussian random distribution) closed by
- fixed: In 4281: […]
- 1:16 AM Changeset [4281] by
- Random generator from a Multivariate Gaussian Distribution. closes #983
Jan 27, 2023:
- 10:22 PM Changeset [4280] by
- wrapper class around gsl_linalg_cholesky_decomp.
Jan 26, 2023:
- 1:37 PM Changeset [4279] by
- require GSL 2.2. refs #983.
- 12:16 PM Ticket #990 (bam_multi_region_iterator.test fails with htslib 1.10.2) closed by
- fixed: In 4278: […]
- 12:16 PM Changeset [4278] by
- closes #990. Backport some functions when building against buggy …
- 12:53 AM Changeset [4277] by
- Check if wanted_version is empty at configure time (not autoconf time) …
Jan 25, 2023:
- 7:58 AM Ticket #991 (Require htslib 1.10) closed by
- fixed: In 4276: […]
- 7:58 AM Changeset [4276] by
- require htslib v1.10; closes #991
- 7:53 AM Changeset [4275] by
- htslib 1.10 is missing includes; #include here instead.
- 1:10 AM Ticket #991 (Require htslib 1.10) created by
- The code introduced for ticket #774 does not compile against htslib …
- 1:07 AM Ticket #990 (bam_multi_region_iterator.test fails with htslib 1.10.2) created by
- It looks like it's due to a bug in htslib. If that's the case, we …
Jan 24, 2023:
- 4:27 PM Changeset [4274] by
- reimplement the other constructors using the new constructor taking a …
- 4:16 PM Changeset [4273] by
- provide interface with hts_pos_t rather than int32_t (to allow large …
- 3:51 PM Ticket #774 (iterate bam file over set of regions) closed by
- fixed: In 4272: […]
- 3:51 PM Changeset [4272] by
- closes #774. Create multi-region iterator.
Jan 22, 2023:
- 8:33 AM Ticket #765 (re-implement WeightedIterator as boost:zip_iterator) closed by
- invalid: While weighted iterator and zip iterator obvs are similar, it seems …
Jan 20, 2023:
- 12:48 AM Changeset [4271] by
- cater for older htslib version in which HTS_VERSION is not #defined
Jan 19, 2023:
- 7:18 AM Changeset [4270] by
- add htslib versions
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