CHANGES IN VERSION 2.2.5 ------------------------ o Fix typo that breaks test <2017-01-25 Wed> CHANGES IN VERSION 2.2.4 ------------------------ o 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 2.2.3 ------------------------ o Ammend failing Ontologies unit test <2017-01-03 Tue> CHANGES IN VERSION 2.2.2 ------------------------ o Update test to reflect GO's new title <2016-12-21 Wed> CHANGES IN VERSION 2.2.1 ------------------------ o Fix failing unit test <2016-11-22 Tue> CHANGES IN VERSION 2.2.0 ------------------------ o Bioconductor release 3.4 CHANGES IN VERSION 2.1.3 ------------------------ o Fix failing tests <2016-09-16 Fri> CHANGES IN VERSION 1.99.1 ------------------------- o Explicitly extract raw content to fix error <2016-04-02 Sat> CHANGES IN VERSION 1.99.0 ------------------------- o Using the REST API CHANGES IN VERSION 1.13.1 ------------------------- o Package deprecation message <2015-12-30 Wed> CHANGES IN VERSION 1.13.0 ------------------------- o Bioc devel 3.3 CHANGES IN VERSION 1.12.0 ------------------------- o Bio release 3.2 CHANGES IN VERSION 1.11.6 ------------------------- o fix failing unit tests <2015-07-02 Thu> CHANGES IN VERSION 1.11.5 ------------------------- o add test script <2015-06-30 Tue> o more unit tests <2015-06-30 Tue> CHANGES IN VERSION 1.11.4 ------------------------- o Fix bug in as("[MS, MS:123, ]", "CVParam") and add unit test <2015-06-19 Fri> CHANGES IN VERSION 1.11.3 ------------------------- o New charIsCVParam function to check if a character represents a valid CV param <2015-06-16 Tue> CHANGES IN VERSION 1.11.2 ------------------------- o Unit test <2015-06-15 Mon> CHANGES IN VERSION 1.11.1 ------------------------- o New char to CVParam coerce method <2015-06-15 Mon> CHANGES IN VERSION 1.11.0 ------------------------- o Bioc devel 3.2 CHANGES IN VERSION 1.10.0 ------------------------- o Bioc release 3.1 CHANGES IN VERSION 1.7.2 ------------------------ o Removing (temporarily) allIds("GO")) example as currently returns illegal message to fix testing error [2014-10-07 Tue] o Updating roxygem inline docs to fix errors in generated Rds [2014-10-07 Tue] CHANGES IN VERSION 1.7.1 ------------------------ o add utils to Imports [2014-04-28 Mon] CHANGES IN VERSION 1.7.0 ------------------------ o new devel, Bioc 3.0 CHANGES IN VERSION 1.6.0 ------------------------ o release for Bioc 2.14 CHANGES IN VERSION 1.5.2 ------------------------ o pretty printing with strwrap(mtd[...]) in vignette and termMetadata S3 printing method for readable output (suggestion from Martin Morgan) [2014-02-18 Tue] o Using BiocStyle vignette [2014-02-18 Tue] CHANGES IN VERSION 1.5.1 ------------------------ o split go terms (PRO:...) instead of ids (PR:...) in vignette tgnqueryShow chunk <2013-10-19 Sat> CHANGES IN VERSION 1.5.0 ------------------------ o new devel for Bioc 2.14 CHANGES IN VERSION 1.3.2 ------------------------ o fixed bug in isIdObsolete, reported by Alex Thomas <2013-07-27 Sat> CHANGES IN VERSION 1.3.1 ------------------------ o other example in CVParam-class example, as PSI ontology is not available <2013-05-02 Thu> Changes IN VERSION 1.3.0 ------------------------ o Bioc 2.13 devel version bump CHANGES IN VERSION 1.2.0 ------------------------ o Bioc 2.12 stable version bump CHANGES IN VERSION 1.1.6 ------------------------ o Using knitr as VignetteEngine and visual tweaking <2013-02-17 Sun> CHANGES IN VERSION 1.1.5 ------------------------ o update vignette for knitr 1.0 compatibility, based on Dan's updates in stable version <2013-01-15 Tue> CHANGES IN VERSION 1.1.4 ------------------------ o changed query to avoid failure (see issue #6) <2012-12-26 Wed> o added missing space in `Empty query results after 3attempts` <2012-12-26 Wed> CHANGES IN VERSION 1.1.3 ------------------------ o updated olsQuery example <2012-12-25 Tue> CHANGES IN VERSION 1.1.2 ------------------------ o .rolsEnv now has emptyenv() as parent <2012-10-31 Wed> CHANGES IN VERSION 1.1.1 ------------------------ o fixing vignette <2012-10-02 Tue> o new iface <2012-10-02 Tue> CHANGES IN VERSION 1.1.0 ------------------------ o 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 of pgfSweave <2012-08-13 Mon> CHANGES IN VERSION 0.99.9 ------------------------- o fixed olsQuery issued warning when missing(ontologyNames) irrespective of extact <2012-05-22 Tue> CHANGES IN VERSION 0.99.8 ------------------------- o really using pdfSweave <2012-05-18 Fri> CHANGES IN VERSION 0.99.7 ------------------------- o using pdfSweave <2012-05-16 Wed> o changed VignetteIndexEntry <2012-05-16 Wed> o removed roxygen2 from Suggests <2012-05-16 Wed> o added README file describinh Rd generation with roxygen2 <2012-05-16 Wed> CHANGES IN VERSION 0.99.6 ------------------------- o implementing Mark Carlson's suggestions o (Temporarily) removing pgf <2012-05-15 Tue> o added Collate field <2012-05-15 Tue> o moving generics and class definitions to AllGenerics.R and AllClasses.R <2012-05-15 Tue> o olsQuery now repeats query 'n' times if reply is empty - see man page for a brief discussion <2012-05-15 Tue> o updated vignette to discuss off/on-line data access <2012-05-15 Tue> CHANGES IN VERSION 0.99.5 ------------------------- o 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 ------------------------- o added url to DESCRIPTION <2012-05-11 Fri> o released CVParam validity contrains: now CVParam name must match term or any synonym <2012-05-11 Fri> o new CVParam constructor <2012-05-11 Fri> CHANGES IN VERSION 0.99.3 ------------------------- o minor vignette update <2012-05-04 Fri> o new CVParam class <2012-05-08 Tue> o More verbose CVParam validity error msg <2012-05-08 Tue> o new 'rep' method for CVParam <2012-05-09 Wed> CHANGES IN VERSION 0.99.2 ------------------------- o olsQuery has a new 'exact' parameter <2012-05-04 Fri> CHANGES IN VERSION 0.99.1 ------------------------- o import(XMLSchema) to remove warning at startup <2012-05-04 Fri> CHANGES IN VERSION 0.99.0 ------------------------- o vignette update <2012-04-30 Mon> o added GO.db to Suggests for vignette <2012-04-30 Mon> o bumped version to 0.99 for Bioc submission <2012-04-30 Mon> CHANGES IN VERSION 0.2.2 ------------------------- o added a vignette <2011-12-18 Sun> o added xtable in suggests for vignette <2011-12-18 Sun> o added parents() and childrenRelations() query functions <2011-12-18 Sun> CHANGES IN VERSION 0.2.1 ------------------------- o added specific SSOAP and XMLSchema version requirements <2011-12-18 Sun> o fixed a couple of typos <2011-12-18 Sun> CHANGES IN VERSION 0.2.0 ------------------------- o initial release