Graph of paxtoolsr
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  • 5c7e0fb (HEAD -> devel, origin/devel, origin/HEAD) Deprecated - unresponsive by lshep <lori.shepherd@roswellpark.org> 2024-12-17 11:06:13 -0500;
  • 1b93a9d (origin/master) 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 09:55:39 -0400;
  • 1f68f19 (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 09:55:39 -0400;
  • 444550a 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 10:39:35 -0400;
  • ee63aa1 (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 10:39:35 -0400;
  • b0226d7 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 10:39:18 -0400;
  • efd04f2 (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 10:39:18 -0400;
  • 059017a 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 10:35:26 -0400;
  • 515aca5 (origin/RELEASE_3_17, RELEASE_3_17) 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 10:35:26 -0400;
  • c30ddf3 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 11:10:30 -0400;
  • cecb363 (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 11:10:30 -0400;
  • de45a88 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 15:22:07 +0000;
  • 191ee3c (origin/RELEASE_3_15, RELEASE_3_15) 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 15:22:07 +0000;
  • 299332b Starting with BioC 3.15 + R 4.2, 32-bit Windows is no longer supported so Windows builds are single arch only (i.e. 64-bit only) by Hervé Pagès <hpages.on.github@gmail.com> 2021-12-16 13:42:59 -0800;
  • cefce6a 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 16:16:43 +0000;
  • ccd6010 (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 16:16:43 +0000;
  • a040cb2 Version change by cannin <cannin@gmail.com> 2021-10-25 11:11:27 -0400;
  • 3a5e95c Update .BBSoptions by Augustin Luna <cannin@gmail.com> 2021-10-25 11:08:07 -0400;
  • 04e1346 Remove cache from GitHub Actions by Augustin Luna <cannin@gmail.com> 2021-10-22 09:23:44 -0400;
  • 2f9b279 Update R-CMD-check.yaml by Augustin Luna <cannin@gmail.com> 2021-10-22 08:33:21 -0400;
  • 6c0dd8f Update R-CMD-check.yaml by Augustin Luna <cannin@gmail.com> 2021-10-22 08:28:32 -0400;
  • 3a34f47 Merge branch 'master' of https://github.com/BioPAX/paxtoolsr into master by cannin <cannin@gmail.com> 2021-10-22 08:20:19 -0400;
  • 10fc6bc Update R-CMD-check.yaml by Augustin Luna <cannin@gmail.com> 2021-10-22 08:19:27 -0400;
  • 407e7db Remove check for Java by cannin <cannin@gmail.com> 2021-10-22 08:15:11 -0400;
  • 57d3592 Change to cat() to paste0() by cannin <cannin@gmail.com> 2021-10-14 11:14:32 -0400;
  • 2ae0511 Changed to title case by cannin <cannin@gmail.com> 2021-10-14 11:13:01 -0400;
  • 1328218 Move Java startup message by cannin <cannin@gmail.com> 2021-10-14 08:56:39 -0400;
  • b22252c Update DESCRIPTION by cannin <cannin@gmail.com> 2021-10-05 23:34:33 -0400;
  • ab7eef4 Added extra java check by cannin <cannin@gmail.com> 2021-10-04 11:49:38 -0400;
  • c48336b Update version by cannin <cannin@gmail.com> 2021-09-16 22:21:16 -0400;
  • bc05330 Merge remote-tracking branch 'upstream/master' into master by cannin <cannin@gmail.com> 2021-09-16 22:18:13 -0400;
  • 5fedb3b Update README.md by Augustin Luna <cannin@gmail.com> 2021-08-28 23:15:12 -0400;
  • 7502305 Recursive directory creation by cannin <cannin@gmail.com> 2021-08-28 21:49:23 -0400;
  • f810dd5 Fix title by cannin <cannin@gmail.com> 2021-08-28 21:23:27 -0400;
  • 4c198ac Updated DESCRIPTION Added rappdirs for caching Removed githubusercontent link by cannin <cannin@gmail.com> 2021-08-28 21:22:17 -0400;
  • 4c0ffd8 Matrix changes by Augustin Luna <cannin@gmail.com> 2021-08-28 20:42:29 -0400;
  • c5c8ef7 Ensure UTF-8 encoding by Augustin Luna <cannin@gmail.com> 2021-08-28 20:22:47 -0400;
  • 04ef92a Remove specific Windows Java checks by Augustin Luna <cannin@gmail.com> 2021-08-28 19:05:20 -0400;
  • b597cd6 Remove multiarch Windows; add Java debugging by Augustin Luna <cannin@gmail.com> 2021-08-28 19:02:39 -0400;
  • 1c1196b Update R-CMD-check.yaml by Augustin Luna <cannin@gmail.com> 2021-08-28 18:49:39 -0400;
  • aa4cbc7 Modify to Java 16 (few flavors support 14) by Augustin Luna <cannin@gmail.com> 2021-08-28 18:40:25 -0400;
  • 81a8b8d Add libcurl by Augustin Luna <cannin@gmail.com> 2021-08-28 18:09:19 -0400;
  • 6f186c0 Remove OS specific R CMD CHECK by Augustin Luna <cannin@gmail.com> 2021-08-28 14:14:41 -0400;
  • 418b08b Added install dependencies by Augustin Luna <cannin@gmail.com> 2021-08-28 11:22:57 -0400;
  • dd55eae Update R-CMD-check.yaml by Augustin Luna <cannin@gmail.com> 2021-08-28 08:45:48 -0400;
  • 9ed2638 Update R-CMD-check.yaml by Augustin Luna <cannin@gmail.com> 2021-08-27 21:21:33 -0400;
  • 8fb5ede Create R-CMD-check.yaml by Augustin Luna <cannin@gmail.com> 2021-08-27 21:11:01 -0400;
  • 6f6d48d Delete .travis.yml by Augustin Luna <cannin@gmail.com> 2021-08-27 21:01:21 -0400;
  • a3516f0 Update README.md by Augustin Luna <cannin@gmail.com> 2021-08-13 11:24:58 -0400;
  • 06ca9af bump x.y.z version to odd y following creation of RELEASE_3_13 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-05-19 16:08:34 +0000;
  • 7635a83 (origin/RELEASE_3_13, RELEASE_3_13) bump x.y.z version to even y prior to creation of RELEASE_3_13 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2021-05-19 16:08:34 +0000;
  • 412052c bump x.y.z version to odd y following creation of RELEASE_3_12 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-10-27 10:59:49 -0400;
  • 24770ee (origin/RELEASE_3_12, RELEASE_3_12) bump x.y.z version to even y prior to creation of RELEASE_3_12 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-10-27 10:59:49 -0400;
  • 84cb775 unsupported on 32-bit Windows (no more JDK for 32-bit Windows) by Hervé Pagès <hpages@fredhutch.org> 2020-09-01 12:36:32 -0700;
  • d4da1f4 bump x.y.z version to odd y following creation of RELEASE_3_11 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-04-27 18:44:11 +0000;
  • e4c4062 (origin/RELEASE_3_11, RELEASE_3_11) bump x.y.z version to even y prior to creation of RELEASE_3_11 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2020-04-27 18:44:11 +0000;
  • 3ee3122 Updated version by cannin <cannin@gmail.com> 2020-03-11 14:58:18 -0400;
  • badd666 Merge remote-tracking branch 'upstream/master' by cannin <cannin@gmail.com> 2020-03-11 08:35:01 -0400;
  • bc09a8c Update using_paxtoolsr.Rmd by Augustin Luna <cannin@gmail.com> 2020-03-11 08:32:30 -0400;
  • 3902d85 Re-did example enrichment analysis with clusterProfiler Switched from class() == to is() == Switched to seq_along() in some cases Made some lines < 80 characters Removed convertIds in favor of clusterProfiler::bitr() Moved convertPathwayList to ignore Added new GMT examples from PC12 Added knitr YAML metadata by cannin <cannin@gmail.com> 2020-03-11 08:08:11 +0000;
  • 435b178 bump x.y.z version to odd y after creation of RELEASE_3_10 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-10-29 13:38:20 -0400;
  • bd307cf (origin/RELEASE_3_10, RELEASE_3_10) bump x.y.z version to even y prior to creation of RELEASE_3_10 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-10-29 13:09:05 -0400;
  • 76b73ed Comments on function by cannin <cannin@gmail.com> 2019-09-10 19:36:46 -0400;
  • da2ea86 Merge branch 'master' of https://github.com/BioPAX/paxtoolsr by cannin <cannin@gmail.com> 2019-09-10 19:21:55 -0400;
  • 803f09d Minor update documentation Fixed readGmt to read name by cannin <cannin@gmail.com> 2019-09-10 19:21:46 -0400;
  • eb1e3bc Check file names from newer PC versions by cannin <cannin@gmail.com> 2019-08-15 08:33:25 -0400;
  • 03ae9e9 Update README.md by Augustin Luna <cannin@gmail.com> 2019-07-23 10:43:34 +0200;
  • f821464 bump x.y.z versions to odd y after creation of RELEASE_3_9 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-05-02 12:11:49 -0400;
  • 204b6d8 (origin/RELEASE_3_9, RELEASE_3_9) bump x.y.z versions to even y prior to creation of RELEASE_3_9 branch by Nitesh Turaga <nitesh.turaga@gmail.com> 2019-05-02 11:53:49 -0400;
  • 46f3ef6 bump x.y.z versions to odd y after creation of RELEASE_3_8 branch by vobencha <vobencha@gmail.com> 2018-10-30 11:54:33 -0400;
  • b009b3d (origin/RELEASE_3_8, RELEASE_3_8) bump x.y.z versions to even y prior to creation of RELEASE_3_8 branch by vobencha <vobencha@gmail.com> 2018-10-30 11:41:55 -0400;
  • 043ed7b Changed figure sizes by cannin <cannin@gmail.com> 2018-10-02 12:03:58 -0400;
  • 364d4a8 Removed paxtoolsr.Rproj by cannin <cannin@gmail.com> 2018-10-01 10:56:54 -0400;
  • e9707b2 Fixed import issue by cannin <cannin@gmail.com> 2018-09-20 05:34:14 -0400;
  • f500f63 Merge remote-tracking branch 'upstream/master' by cannin <cannin@gmail.com> 2018-09-20 05:03:03 -0400;
  • f507eba Updated .Rbuildignore Replaced data.table with readr Removed incomplete functions Added examples Added importFrom statements Updated reading for PCV10; with an attempt to be backwards compatible Updated getPcDatabasesNames for recent file name changes Added additional headers to deal with PC API issues: XML vs JSON return Switched to query parameter for PC API calls with httr rather than URL creation Removed skip_on_bioc since now in testthat Expanded pcFormats Expanded checkInputFile with additional checks Updated pathways.txt.gz example file by cannin <cannin@gmail.com> 2018-09-20 04:51:31 -0400;
  • b80855d replace BiocInstaller biocLite mentions with BiocManager by LiNk-NY <mramos09@gmail.com> 2018-08-30 13:53:50 -0400;
  • 66cfd38 Merge remote-tracking branch 'upstream/master' by cannin <cannin@gmail.com> 2018-08-27 13:37:55 -0400;
  • 4d0b9d5 Merge branch 'master' of https://github.com/cannin/paxtoolsr by cannin <cannin@gmail.com> 2018-08-09 21:27:54 -0400;
  • 025b78d URL encode user inputs to traverse by cannin <cannin@gmail.com> 2018-07-23 16:02:55 -0400;
  • 742bbec Moved results creation for large files so that the code can find nodes by cannin <cannin@gmail.com> 2018-07-23 15:33:39 -0400;
  • 8aa44c0 bump x.y.z versions to odd y after creation of RELEASE_3_7 branch by vobencha <valerie.obenchain@roswellpark.org> 2018-04-30 10:41:40 -0400;
  • e20a1a7 (origin/RELEASE_3_7, RELEASE_3_7) bump x.y.z versions to even y prior to creation of RELEASE_3_7 branch by vobencha <valerie.obenchain@roswellpark.org> 2018-04-30 10:35:34 -0400;
  • 39c9a05 Added sub-pathway names to readPcPathwaysInfo Renamed pathways.txt.gz Changed documentation to force version information in downloadPc2 by cannin <cannin@gmail.com> 2018-01-11 17:13:44 -0500;
  • ef55749 Added convertToDataFrameWithListOfVectors (opposite also included) Removed default version in downloadPc2 (current no longer works) Deleted idMapping since it was removed (also from vignette) Added readSifnxSmall for small SIFNX by cannin <cannin@gmail.com> 2018-01-11 13:52:27 -0500;
  • 1d15f82 bump x.y.z versions to odd y after creation of RELEASE_3_6 branch by Hervé Pagès <hpages@fredhutch.org> 2017-10-30 12:53:46 -0400;
  • 4bf56d9 (origin/RELEASE_3_6, RELEASE_3_6) bump x.y.z versions to even y prior to creation of RELEASE_3_6 branch by Hervé Pagès <hpages@fredhutch.org> 2017-10-30 12:40:41 -0400;
  • 7448380 bump x.y.z versions to odd y after creation of 3_5 branch by Herve Pages <hpages@fhcrc.org> 2017-04-24 19:50:57 +0000;
  • 9542d22 (origin/RELEASE_3_5, RELEASE_3_5) Creating branch for BioC 3.5 release by Herve Pages <hpages@fhcrc.org> 2017-04-24 19:45:44 +0000;
  • 0a728ce bump x.y.z versions to even y prior to creation of 3_5 branch by Herve Pages <hpages@fhcrc.org> 2017-04-24 19:25:24 +0000;
  • 342700d Removed idMapping function that no longer works by Augustin Luna <lunaa@cbio.mskcc.org> 2017-04-10 14:33:57 +0000;
  • 3559497 toCytoscape added by cannin <cannin@gmail.com> 2017-03-24 17:57:36 -0400;
  • 194a6bf Merge branch 'master' of https://github.com/cannin/paxtoolsr by cannin <cannin@gmail.com> 2017-03-16 08:52:27 -0400;
  • f036a55 Minor by cannin <cannin@gmail.com> 2017-03-16 08:52:13 -0400;
  • 62aab50 Added readCombinedSifnxFile by cannin <cannin@gmail.com> 2017-02-22 11:22:03 -0500;
  • f99d95c Update .travis.yml by Augustin Luna <cannin@gmail.com> 2016-12-10 19:30:53 -0500;
  • 01b24fe Updated Travis CI by cannin <cannin@gmail.com> 2016-11-17 14:38:19 -0600;
  • 2f46dab Updated Travis CI by cannin <cannin@gmail.com> 2016-11-17 14:23:03 -0600;
  • 793911c Updated Travis CI by cannin <cannin@gmail.com> 2016-11-17 14:20:35 -0600;
  • e38e685 Fixed bug in reading 1 entry GMT files Minor documentation fixes by cannin <cannin@gmail.com> 2016-11-17 13:34:02 -0600;