QCTOOL

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50 most recent check-ins

2020-08-22
22:26
Fix download links for zip and tarball on download page Leaf check-in: beeade86f9 user: gav tags: release
2020-07-24
13:14
CohortIndividualSource: make sure ID_1 is treated as a column name when searching for it. Leaf check-in: ade6dc6afb user: gav tags: trunk, master
11:44
Bump to v2.1.8. hptest: add -sample-data option, similar to that in qctool. Also, determine bayesian or frequentist output based on whether there are actually priors applied check-in: 356ce4e502 user: gav tags: trunk, master
11:30
hptest: catch case when covariate has no levels check-in: 4d62c8d7f4 user: gav tags: trunk, master
2020-07-21
13:31
hptest: make prior spec expansion more efficient check-in: 80867ba248 user: gav tags: trunk, master
13:14
Bump to v1.1.7. hptest: make default priors apply across strata. check-in: 3578f8631e user: gav tags: trunk, master
2020-07-16
22:03
hptest: fix issues with -stratify check-in: 2386a58ad3 user: gav tags: trunk, master
13:48
hptest: fix -stratify to allow original info and count computation to still work check-in: 180e9e6b06 user: gav tags: trunk, master
10:14
hptest: add -stratify option check-in: 8b5c90a411 user: gav tags: trunk, master
2020-07-08
13:02
selfmap: remove unused variable check-in: 76f8c10c63 user: gav tags: trunk, master
12:57
selfmap: fix for output of kmer size check-in: a4b49b4352 user: gav tags: trunk, master
12:50
Bump to 2.1.5. selfmap: add -omit-sequence option and output k in the overlap table. check-in: f2a06c1e3f user: gav tags: trunk, master
12:16
GenomeSequence: support unprefixed sequences check-in: da828550b0 user: gav tags: trunk, master
2020-06-30
15:47
Whoops, fix download page again. check-in: b1c78b9a69 user: gav tags: trunk, master
15:45
Download page tweak check-in: 63972ea520 user: gav tags: trunk, master
15:41
Pull downlaod page change from release branch check-in: 6b12462330 user: gav tags: trunk, master
15:40
Fix download page for v2.0.8 check-in: 2a7cc007cf user: gav tags: release, v2.0.8
15:13
Bump to v2.0.8. Implement fixes for [b952a6be] and [4d88dff8cc]. check-in: 2fcd3b2679 user: gav tags: release
15:03
qctool: make sure -reorder is rejected if no sample IDs. Add test for -reorder without sample file, and sample filters without sample file Leaf check-in: 69ce5b9cd4 user: gav tags: b952a6be-fix
14:25
SampleFilteringSNPDataSOurce: implement get_sample_ids() correctly. check-in: 051b48479e user: gav tags: b952a6be-fix
14:24
Improve sample filtering testing for sample IDs fix. check-in: 3326af54c2 user: gav tags: b952a6be-fix
13:48
stats_test.R: fix sample identifiers to avoid mismatch issue check-in: 8f58330d92 user: gav tags: b952a6be-fix
11:20
Make qctool understand when genotype source contains sample identifiers, to fix issue [b952a6be]. This change should really have been made against trunk but placing here because I have implemented it here. This change requires additional testing; tests fail at present which may be due to incompatible sample IDs in test data sources. check-in: 500cd8c3bd user: gav tags: b952a6be-fix
09:11
Import VCF semicolon fix from trunk (0084026f03); fix tests to run again Leaf check-in: 5020f419ab user: gav tags: 4d88dff8cc-fix
09:08
Bump to v2.0.8-beta; allow VCF GP field without GT field fixing ticket 4d88dff8cc check-in: 1757d58665 user: gav tags: 4d88dff8cc-fix
2020-06-27
16:15
Removed .hgignore and .hgrc files check-in: 3d560ec0c8 user: gav tags: trunk, master
11:23
Update README and download page again to point to main qctool doc page on well.ox.ac.uk check-in: fdb5c52a05 user: gav tags: trunk, master
11:16
Whoops, merge boost files change into release branch check-in: a1361a4ee4 user: gav tags: release
11:11
Removed unneeded boost files Leaf check-in: a0360ebe1c user: gav
11:03
Create new branch named "release" check-in: cbc5c9afbe user: gav tags: release
10:58
README.md: include links to docs and use main doc download page check-in: eb768b84d0 user: gav tags: trunk, master
2020-06-26
23:44
Fix link to fossil repo home page for acknowledgements check-in: 54c8a80223 user: gav tags: trunk, master
23:43
Fix download page link to wiki check-in: eedb65deec user: gav tags: trunk, master
23:39
More work linking wiki pages etc. check-in: c0748e5602 user: gav tags: trunk, master
23:38
More work linking wiki pages etc. check-in: 14e043d3df user: gav tags: trunk, master
23:30
Work on download page. check-in: 349de1f189 user: gav tags: trunk, master
23:00
Update README.md check-in: 7955a5f615 user: gav tags: trunk, master
23:00
Update README.md check-in: aeaf15ec87 user: gav tags: trunk, master
22:58
Work on README and download page for code.enkre.net check-in: 2c0b74be73 user: gav tags: trunk, master
2020-06-02
12:44
Added boost iostreams, remove more boost files check-in: e1c3e92372 user: gav tags: trunk, master
12:37
Remove unneeded boost files check-in: ae70c8b879 user: gav tags: trunk, master
11:00
hptest: add -treat-predictor-as-haploid option. Ensure support haploid predictor and outcome. check-in: 0604a16e58 user: gav tags: trunk, master
2020-06-01
23:05
ldbird: factor out CartesianProduct to genfile::CartesianProductVisitor. hptest: use CartesianProductVisitor check-in: 8907d42d5a user: gav tags: trunk, master
2020-05-28
16:14
Bump to v2.1.3 check-in: 3d76073841 user: gav tags: trunk, master, v2.1.3
16:13
Fix again bug in -assume-haploid check-in: ec8d5dd37f user: gav tags: trunk, master
15:37
ldbird: fix problem with missingness using -assume-haploid check-in: dccb8e6c10 user: gav tags: trunk, master
08:52
Bump to v2.1.2 check-in: 2214dffa2c user: gav tags: trunk, master, v2.1.2
2020-05-27
15:07
ldbird: implement -details check-in: 6a6109c653 user: gav tags: trunk, master
14:57
test_modified_cholesky: use DEBUG macro to control debug check-in: 5e8e016aa6 user: gav tags: trunk, master
14:56
metro:log_sum_exp(): return -inf if no arguments are given (sum of zero terms is zero) check-in: ea99f60e33 user: gav tags: trunk, master