CHANGES IN VERSION 2.9.4 ------------------------ - Fix unit test <2018-10-06 Sat> CHANGES IN VERSION 2.9.3 ------------------------ - Update news and pkgdown CHANGES IN VERSION 2.9.2 ------------------------ - replace BiocInstaller biocLite mentions with BiocManager CHANGES IN VERSION 2.9.1 ------------------------ - Fix bug ancestors function, reported by Christian Holland (see https://github.com/lgatto/rols/issues/26 for details) <2018-06-01 Fri> CHANGES IN VERSION 2.9.0 ------------------------ - Bioconductor devel CHANGES IN VERSION 2.8.0 ------------------------ - Bioconductor release CHANGES IN VERSION 2.7.2 ------------------------ - Nothing yet CHANGES IN VERSION 2.7.1 ------------------------ - Fix failing partOf unit test <2017-11-27 Mon> CHANGES IN VERSION 2.7.0 ------------------------ - Bioconductor devel 3.7 CHANGES IN VERSION 2.6.0 ------------------------ - Bioconductor release 3.6 CHANGES IN VERSION 2.5.6 ------------------------ - bump version CHANGES IN VERSION 2.5.5 ------------------------ - Fix failing test do to different order <2017-10-23 Mon> CHANGES IN VERSION 2.5.4 ------------------------ - Fix bug in pagesize limit when reporting children, ancestors, ... (see issue #25) <2017-10-17 Tue> CHANGES IN VERSION 2.5.4 ------------------------ - New term(s) to data.frame coersion methods <2017-10-14 Sat> CHANGES IN VERSION 2.5.3 ------------------------ - Add import Ontology in NAMESPACE CHANGES IN VERSION 2.5.2 ------------------------ - Update to latest BiocStyle <2017-09-01 Fri> - Quick fix for issue #24 (reported upsteams) <2017-09-02 Sat> - Use Ontology generic from BiocGenerics <2017-09-03 Sun> CHANGES IN VERSION 2.5.1 ------------------------ - Fix unit test <2017-06-20 Tue> CHANGES IN VERSION 2.5.0 ------------------------ - Bioconductor devel 3.6 CHANGES IN VERSION 2.4.0 ------------------------ - Bioconductor release 3.5 CHANGES IN VERSION 2.3.5 ------------------------ - Fix failing test <2017-03-15 Wed> CHANGES IN VERSION 2.3.4 ------------------------ - Ammend failing Ontologies unit test (related to changes made in version 2.3.3: the GO name reverted back to Gene Ontolgy) <2017-01-11 Wed> CHANGES IN VERSION 2.3.3 ------------------------ - Add ctb to Authors@R <2016-12-28 Wed> - use NEWS.md <2016-12-28 Wed> - Ammend failing Ontologies unit test <2017-01-02 Mon> CHANGES IN VERSION 2.3.2 ------------------------ - Update test to reflect GO's new title <2016-12-21 Wed> CHANGES IN VERSION 2.3.1 ------------------------ - Fix failing unit test <2016-11-22 Tue> CHANGES IN VERSION 2.3.0 ------------------------ - Bioconductor devel 3.5 CHANGES IN VERSION 2.2.0 ------------------------ - Bioconductor release 3.4 CHANGES IN VERSION 2.1.3 ------------------------ - Fix failing tests <2016-09-16 Fri> CHANGES IN VERSION 1.99.1 ------------------------- - Explicitly extract raw content to fix error <2016-04-02 Sat> CHANGES IN VERSION 1.99.0 ------------------------- - Using the REST API CHANGES IN VERSION 1.13.1 ------------------------- - Package deprecation message <2015-12-30 Wed> CHANGES IN VERSION 1.13.0 ------------------------- - Bioc devel 3.3 CHANGES IN VERSION 1.12.0 ------------------------- - Bio release 3.2 CHANGES IN VERSION 1.11.6 ------------------------- - fix failing unit tests <2015-07-02 Thu> CHANGES IN VERSION 1.11.5 ------------------------- - add test script <2015-06-30 Tue> - more unit tests <2015-06-30 Tue> CHANGES IN VERSION 1.11.4 ------------------------- - Fix bug in as("[MS, MS:123, ]", "CVParam") and add unit test <2015-06-19 Fri> CHANGES IN VERSION 1.11.3 ------------------------- - New charIsCVParam function to check if a character represents a valid CV param <2015-06-16 Tue> CHANGES IN VERSION 1.11.2 ------------------------- - Unit test <2015-06-15 Mon> CHANGES IN VERSION 1.11.1 ------------------------- - New char to CVParam coerce method <2015-06-15 Mon> CHANGES IN VERSION 1.11.0 ------------------------- - Bioc devel 3.2 CHANGES IN VERSION 1.10.0 ------------------------- - Bioc release 3.1 CHANGES IN VERSION 1.7.2 ------------------------ - Removing (temporarily) allIds("GO")) example as currently returns illegal message to fix testing error [2014-10-07 Tue] - Updating roxygem inline docs to fix errors in generated Rds [2014-10-07 Tue] CHANGES IN VERSION 1.7.1 ------------------------ - add utils to Imports [2014-04-28 Mon] CHANGES IN VERSION 1.7.0 ------------------------ - new devel, Bioc 3.0 CHANGES IN VERSION 1.6.0 ------------------------ - release for Bioc 2.14 CHANGES IN VERSION 1.5.2 ------------------------ - pretty printing with strwrap(mtd[...]) in vignette and termMetadata S3 printing method for readable-utput (suggestion from Martin Morgan) [2014-02-18 Tue] - Using BiocStyle vignette [2014-02-18 Tue] CHANGES IN VERSION 1.5.1 ------------------------ - split go terms (PRO:...) instead-f ids (PR:...) in vignette tgnqueryShow chunk <2013-10-19 Sat> CHANGES IN VERSION 1.5.0 ------------------------ - new devel for Bioc 2.14 CHANGES IN VERSION 1.3.2 ------------------------ - fixed bug in isIdObsolete, reported by Alex Thomas <2013-07-27 Sat> CHANGES IN VERSION 1.3.1 ------------------------ --ther example in CVParam-class example, as PSI-ntology is not available <2013-05-02 Thu> Changes IN VERSION 1.3.0 - Bioc 2.13 devel version bump CHANGES IN VERSION 1.2.0 ------------------------ - Bioc 2.12 stable version bump CHANGES IN VERSION 1.1.6 ------------------------ - Using knitr as VignetteEngine and visual tweaking <2013-02-17 Sun> CHANGES IN VERSION 1.1.5 ------------------------ - update vignette for knitr 1.0 compatibility, based-n Dan's updates in stable version <2013-01-15 Tue> CHANGES IN VERSION 1.1.4 ------------------------ - changed query to avoid failure (see issue #6) <2012-12-26 Wed> - added missing space in `Empty query results after 3attempts` <2012-12-26 Wed> CHANGES IN VERSION 1.1.3 ------------------------ - updated-lsQuery example <2012-12-25 Tue> CHANGES IN VERSION 1.1.2 ------------------------ - .rolsEnv now has emptyenv() as parent <2012-10-31 Wed> CHANGES IN VERSION 1.1.1 ------------------------ - fixing vignette <2012-10-02 Tue> - new iface <2012-10-02 Tue> CHANGES IN VERSION 1.1.0 ------------------------ - version bump for next devel <2012-10-01 Mon> CHANGES IN VERSION 0.99.12 -------------------------- o updated README.md (for github) and .Rbuildignore <2012-09-19 Wed> CHANGES IN VERSION 0.99.11 -------------------------- o updated biocViews <2012-09-18 Tue> CHANGES IN VERSION 0.99.10 -------------------------- o using knitr instead-f pgfSweave <2012-08-13 Mon> CHANGES IN VERSION 0.99.9 ------------------------- - fixed-lsQuery issued warning when missing(ontologyNames) irrespective-f extact <2012-05-22 Tue> CHANGES IN VERSION 0.99.8 ------------------------- - really using pdfSweave <2012-05-18 Fri> CHANGES IN VERSION 0.99.7 ------------------------- - using pdfSweave <2012-05-16 Wed> - changed VignetteIndexEntry <2012-05-16 Wed> - removed roxygen2 from Suggests <2012-05-16 Wed> - added README file describinh Rd generation with roxygen2 <2012-05-16 Wed> CHANGES IN VERSION 0.99.6 ------------------------- - implementing Mark Carlson's suggestions - (Temporarily) removing pgf <2012-05-15 Tue> - added Collate field <2012-05-15 Tue> - moving generics and class definitions to AllGenerics.R and AllClasses.R <2012-05-15 Tue> --lsQuery now repeats query 'n' times if reply is empty - see man page for a brief discussion <2012-05-15 Tue> - updated vignette to discuss-ff/on-line data access <2012-05-15 Tue> CHANGES IN VERSION 0.99.5 ------------------------- - downgraded SSOAP dependency to (>= 0.8.0), as later SSOAP versions are not available through biocLite (due to check errors). rols works with SSOAP 0.8.0 and XMLSchema 0.7.2. <2012-05-11 Fri> CHANGES IN VERSION 0.99.4 ------------------------- - added url to DESCRIPTION <2012-05-11 Fri> - released CVParam validity contrains: now CVParam name must match term-r any synonym <2012-05-11 Fri> - new CVParam constructor <2012-05-11 Fri> CHANGES IN VERSION 0.99.3 ------------------------- - minor vignette update <2012-05-04 Fri> - new CVParam class <2012-05-08 Tue> - More verbose CVParam validity error msg <2012-05-08 Tue> - new 'rep' method for CVParam <2012-05-09 Wed> CHANGES IN VERSION 0.99.2 ------------------------- --lsQuery has a new 'exact' parameter <2012-05-04 Fri> CHANGES IN VERSION 0.99.1 ------------------------- - import(XMLSchema) to remove warning at startup <2012-05-04 Fri> CHANGES IN VERSION 0.99.0 ------------------------- - vignette update <2012-04-30 Mon> - added GO.db to Suggests for vignette <2012-04-30 Mon> - bumped version to 0.99 for Bioc submission <2012-04-30 Mon> CHANGES IN VERSION 0.2.2 ------------------------ - added a vignette <2011-12-18 Sun> - added xtable in suggests for vignette <2011-12-18 Sun> - added parents() and childrenRelations() query functions <2011-12-18 Sun> CHANGES IN VERSION 0.2.1 ------------------------ - added specific SSOAP and XMLSchema version requirements <2011-12-18 Sun> - fixed a couple-f typos <2011-12-18 Sun> CHANGES IN VERSION 0.2.0 ------------------------ - initial release