- compcodeR
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e1b50cd
(HEAD -> devel, origin/devel, origin/HEAD)
Update actions/cache by
Charlotte Soneson <charlottesoneson@gmail.com>
2024-12-21 18:49:41 +0100;
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fdc74f1
(origin/master)
Merge remote-tracking branch 'upstream/devel' into devel by
Charlotte Soneson <charlottesoneson@gmail.com>
2024-11-02 16:39:26 +0100;
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a538f70
bump x.y.z version to odd y following creation of RELEASE_3_20 branch by
J Wokaty <jennifer.wokaty@sph.cuny.edu>
2024-10-29 09:51:49 -0400;
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192bb4a
(origin/RELEASE_3_20, RELEASE_3_20)
bump x.y.z version to even y prior to creation of RELEASE_3_20 branch by
J Wokaty <jennifer.wokaty@sph.cuny.edu>
2024-10-29 09:51:49 -0400;
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9ca6e9b
Update upload-artifact action by
Charlotte Soneson <charlottesoneson@gmail.com>
2024-07-14 22:29:32 +0200;
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e5a2855
Use devel version of pak by
Charlotte Soneson <charlottesoneson@gmail.com>
2024-05-18 09:49:41 +0200;
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f304ec8
Use setup-r-dependencies action on Linux by
Charlotte Soneson <charlottesoneson@gmail.com>
2024-05-17 09:31:29 +0200;
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f54678b
bump x.y.z version to odd y following creation of RELEASE_3_19 branch by
J Wokaty <jwokaty@users.noreply.github.com>
2024-04-30 10:36:17 -0400;
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5213459
(origin/RELEASE_3_19, RELEASE_3_19)
bump x.y.z version to even y prior to creation of RELEASE_3_19 branch by
J Wokaty <jwokaty@users.noreply.github.com>
2024-04-30 10:36:17 -0400;
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d8f87e8
bump x.y.z version to odd y following creation of RELEASE_3_18 branch by
J Wokaty <jennifer.wokaty@sph.cuny.edu>
2023-10-24 09:58:44 -0400;
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1bea8af
(origin/RELEASE_3_18, RELEASE_3_18)
bump x.y.z version to even y prior to creation of RELEASE_3_18 branch by
J Wokaty <jennifer.wokaty@sph.cuny.edu>
2023-10-24 09:58:44 -0400;
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f49091c
Fix imports by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-09-28 13:02:09 +0200;
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58f4d83
Merge pull request <a href="#20">#20</a> from csoneson/shinygui by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-09-24 11:06:10 +0200;
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6ca173b
Update NEWS by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-09-24 11:05:43 +0200;
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fa599f8
Fix message by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-09-22 17:23:04 +0200;
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16b3dc6
Fix typos by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-07-03 20:10:13 +0200;
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60ac6a1
Document runComparisonShiny by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-07-03 19:41:27 +0200;
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c76bdcd
Remove baySeq (deprecated) by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-07-03 19:37:48 +0200;
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9484c0c
Swap markdown::markdownToHTML for rmarkdown::pandoc_convert by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-07-03 19:16:03 +0200;
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b4dfc5a
Fix imports by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-07-03 16:54:45 +0200;
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9c29bec
Merge branch 'devel' into shinygui by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-07-03 16:24:07 +0200;
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5d5855a
(origin/RELEASE_3_17, RELEASE_3_17)
Fix phylolm.factor test error by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-07-03 16:23:42 +0200;
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e7b809e
Version bump by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-07-03 16:21:36 +0200;
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ce991b7
Move tcltk and sm to Suggests by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-07-03 16:17:57 +0200;
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723a017
Merge pull request <a href="#19">#19</a> from pbastide/phylolm_factor_win by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-07-03 16:14:35 +0200;
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98b252d
Trying phylolm.factor with measurement error by
Paul Bastide <paul.bastide@m4x.org>
2023-07-03 09:46:41 +0200;
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5c5a56c
Merge remote-tracking branch 'upstream/devel' into devel by
Paul Bastide <paul.bastide@m4x.org>
2023-07-03 07:36:32 +0200;
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d37689d
Merge branch 'devel' into shinygui by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-06-30 12:39:41 +0200;
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56259d3
Exclude test giving invalid Windows file name by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-06-28 13:22:36 +0200;
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54b4671
Bump version by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-06-28 13:20:36 +0200;
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8e7b7f7
Clean up by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-06-25 09:55:00 +0200;
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5c2b812
Remove phylolm.factor from generateCodeHTML test by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-06-25 09:11:16 +0200;
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52ad9c3
GHA: Reorder methods by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-06-25 08:46:31 +0200;
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19c867e
GHA: print method/file names for code generation by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-06-24 20:49:00 +0200;
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0ed57a1
GHA: Update gfortran symlink by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-06-24 20:30:50 +0200;
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bab6413
Merge remote-tracking branch 'upstream/devel' into devel by
Paul Bastide <paul.bastide@m4x.org>
2023-05-23 13:23:01 +0200;
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7f75f7c
Update GHA workflow by
Charlotte Soneson <charlottesoneson@gmail.com>
2023-05-13 09:30:56 +0200;
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e1b28df
bump x.y.z version to odd y following creation of RELEASE_3_17 branch by
J Wokaty <jwokaty@users.noreply.github.com>
2023-04-25 10:31:47 -0400;
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d667873
bump x.y.z version to even y prior to creation of RELEASE_3_17 branch by
J Wokaty <jwokaty@users.noreply.github.com>
2023-04-25 10:31:47 -0400;
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98f38b6
Merge pull request <a href="#16">#16</a> from pbastide/sva by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-11-09 15:44:38 +0100;
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24bc4b6
Clean-up and bump version by
Paul Bastide <paul.bastide@gmail.com>
2022-11-09 14:41:00 +0100;
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44c71fb
Merge branch 'master' into sva by
Paul Bastide <paul.bastide@gmail.com>
2022-11-07 09:31:27 +0100;
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9130305
Test for correct variable in sva analysis. by
Paul Bastide <paul.bastide@gmail.com>
2022-11-02 19:09:28 +0100;
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ec6272c
Merge remote-tracking branch 'upstream/master' by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-11-01 21:53:24 +0100;
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b978c66
Add SVA analysis by
Paul Bastide <paul.bastide@gmail.com>
2022-11-01 17:33:50 +0100;
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dfd6faa
bump x.y.z version to odd y following creation of RELEASE_3_16 branch by
J Wokaty <jennifer.wokaty@sph.cuny.edu>
2022-11-01 11:09:36 -0400;
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0febb89
(origin/RELEASE_3_16, RELEASE_3_16)
bump x.y.z version to even y prior to creation of RELEASE_3_16 branch by
J Wokaty <jennifer.wokaty@sph.cuny.edu>
2022-11-01 11:09:36 -0400;
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3a976d3
Change version of r-lib action by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-10-21 11:08:48 +0200;
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aba6206
(origin/RELEASE_3_15, RELEASE_3_15)
Version bump by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-09-22 17:19:19 +0200;
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eba9878
Increase tolerence for highly variable counts. by
Paul Bastide <paul.bastide@gmail.com>
2022-09-19 19:51:45 +0200;
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98ff874
Use inherits for S3 class. by
Paul Bastide <paul.bastide@gmail.com>
2022-09-19 19:31:24 +0200;
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9717107
Version bump by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-09-20 15:57:34 +0200;
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4c2a8b3
Merge pull request <a href="#15">#15</a> from pbastide/master by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-09-20 15:53:59 +0200;
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0968bcf
Increase tolerence for highly variable counts. by
Paul Bastide <paul.bastide@gmail.com>
2022-09-19 19:51:45 +0200;
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710a557
Use inherits for S3 class. by
Paul Bastide <paul.bastide@gmail.com>
2022-09-19 19:31:24 +0200;
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495ccb2
Merge remote-tracking branch 'upstream/master' by
Paul Bastide <paul.bastide@gmail.com>
2022-09-19 18:53:29 +0200;
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67abd7f
Use bioc actions by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-04-30 11:27:02 +0200;
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2f26264
Merge remote-tracking branch 'upstream/master' by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-04-30 11:22:17 +0200;
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748016a
bump x.y.z version to odd y following creation of RELEASE_3_15 branch by
Nitesh Turaga <nitesh.turaga@gmail.com>
2022-04-26 15:19:31 +0000;
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9d33fad
bump x.y.z version to even y prior to creation of RELEASE_3_15 branch by
Nitesh Turaga <nitesh.turaga@gmail.com>
2022-04-26 15:19:31 +0000;
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018cc8e
Set bitmapType by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-02-20 10:56:25 +0100;
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230de4e
Merge remote-tracking branch 'upstream/master' by
Paul Bastide <paul.bastide@gmail.com>
2022-01-24 16:02:58 +0100;
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730c4d0
Merge pull request <a href="#14">#14</a> from csoneson/phylocomp by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-01-24 12:27:05 +0100;
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361f261
Bump version by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-01-24 11:21:35 +0100;
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33b9959
Add runComparisonShiny by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-01-24 11:20:10 +0100;
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406040b
Merge pull request <a href="#13">#13</a> from pbastide/toCompcodeR by
Charlotte Soneson <charlottesoneson@gmail.com>
2022-01-24 11:16:32 +0100;
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faffdef
Update citation with preprint. by
Paul Bastide <paul.bastide@gmail.com>
2022-01-24 09:15:02 +0100;
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e646f44
Merge pull request <a href="#11">#11</a> from pbastide/toCompcodeR by
Charlotte Soneson <charlottesoneson@gmail.com>
2021-11-30 20:05:50 +0100;
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0c1f4e7
DESeq2.length.results -> DESeq2.results by
Paul Bastide <paul.bastide@gmail.com>
2021-11-30 10:58:17 +0100;
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82ffb87
More param inheritance. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-25 09:20:06 +0100;
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34d9948
Add nas.as.ones in DESeq2.createRmd and remove some roxygen redundancy. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-25 09:11:10 +0100;
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d7b7444
nas_as_ones -> nas.as.ones by
Paul Bastide <paul.bastide@gmail.com>
2021-11-24 17:03:23 +0100;
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3fba209
Dependency on phytools for tests. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-24 11:08:09 +0100;
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fd26b74
Allow prop.var.tree to be a vector. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-24 10:21:37 +0100;
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ebe2728
Add message for nas_to_ones argument. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-22 18:28:23 +0100;
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30f98c4
Add an option to set NAs padj to 1 in DESeq2. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-22 10:11:33 +0100;
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49e6ea8
Add some correlation tests by
Paul Bastide <paul.bastide@gmail.com>
2021-11-22 09:33:09 +0100;
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b877840
rpois_robust is not needed since R 4.0 by
Paul Bastide <paul.bastide@gmail.com>
2021-11-22 09:12:53 +0100;
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3d2c379
Correct error in rpois_robust by
Paul Bastide <paul.bastide@gmail.com>
2021-11-22 09:08:54 +0100;
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2554cd8
Remove dependency to viridis package. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-22 09:07:31 +0100;
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44a82c9
Safeguarding in the data summary report by
Charlotte Soneson <charlottesoneson@gmail.com>
2021-11-10 18:05:12 +0100;
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1648beb
Merge pull request <a href="#10">#10</a> from pbastide/toCompcodeR by
Charlotte Soneson <charlottesoneson@gmail.com>
2021-11-06 09:16:22 +0100;
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e5dabd2
Add statmod in suggest, required for correlation modelling in limma. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-03 11:45:31 +0100;
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feb8c2c
More tests and correction in covariate handling. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-03 09:27:42 +0100;
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5d0fb6d
More tests. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-02 16:07:08 +0100;
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aef6c7a
Test and slight refactor on phyloCompData class checks. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-02 16:06:53 +0100;
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69d793d
Add covr in suggest by
Paul Bastide <paul.bastide@gmail.com>
2021-11-02 11:49:58 +0100;
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a2e847e
Add tests for generateSyntheticData and runDiffExpr with phylo tree. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-02 11:00:50 +0100;
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67375b3
Remove deprecated option from phylolm. by
Paul Bastide <paul.bastide@gmail.com>
2021-11-02 10:01:24 +0100;
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90a4ef7
Merge remote-tracking branch 'upstream/master' by
Paul Bastide <paul.bastide@gmail.com>
2021-11-02 09:49:31 +0100;
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2ef38b1
Updates from upstream by
Charlotte Soneson <charlottesoneson@gmail.com>
2021-10-30 14:25:32 +0200;
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7d50e69
Use ubuntu-latest on GHA by
Charlotte Soneson <charlottesoneson@gmail.com>
2021-10-30 14:22:29 +0200;
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d22c179
Use R devel on GHA by
Charlotte Soneson <charlottesoneson@gmail.com>
2021-10-30 14:20:16 +0200;
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2b73324
Merge remote-tracking branch 'upstream/master' by
Charlotte Soneson <charlottesoneson@gmail.com>
2021-10-27 08:42:17 +0200;
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8a1ba36
bump x.y.z version to odd y following creation of RELEASE_3_14 branch by
Nitesh Turaga <nitesh.turaga@gmail.com>
2021-10-26 16:13:18 +0000;
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bd52d89
(origin/RELEASE_3_14, RELEASE_3_14)
bump x.y.z version to even y prior to creation of RELEASE_3_14 branch by
Nitesh Turaga <nitesh.turaga@gmail.com>
2021-10-26 16:13:18 +0000;
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d9683d2
Use ubuntu-latest on GHA by
Charlotte Soneson <charlottesoneson@gmail.com>
2021-10-24 21:51:41 +0200;
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541ad97
Merge pull request <a href="#8">#8</a> from pbastide/toCompcodeR by
Charlotte Soneson <charlottesoneson@gmail.com>
2021-10-24 21:48:58 +0200;
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a0911fd
Change version to 1.29.1 by
Paul Bastide <paul.bastide@gmail.com>
2021-10-22 16:06:05 +0200;
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b75ae90
Skip tests individually by
Paul Bastide <paul.bastide@gmail.com>
2021-10-04 12:36:26 +0200;