Bioconductor Changelog
   


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Wed, 30 Apr 2008

GEOquery
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GEOquery] permanent link

Sat, 26 Apr 2008

GEOquery
fixed for check

[/GEOquery] permanent link

Fri, 18 Apr 2008

GEOquery
Fixed getDirListing to close a temporary textConnection

[/GEOquery] permanent link

Fri, 28 Mar 2008

GEOquery
Rebuilt Vignette

[/GEOquery] permanent link

Wed, 26 Mar 2008

GEOquery
Fixed some problems with vignette and added comments about raw data download

[/GEOquery] permanent link

Mon, 24 Mar 2008

GEOquery
fixed parseGSE when GSEMatrix=FALSE to use textConnections again; was failing to adjust for _table_end stuff

[/GEOquery] permanent link

Sun, 23 Mar 2008

GEOquery
fixed parseGSE when GSEMatrix=FALSE to use textConnections again; was failing to adjust for _table_end stuff

[/GEOquery] permanent link

Sat, 22 Mar 2008

GEOquery
Added support for supplemental file downloads for all GEO datatypes

[/GEOquery] permanent link

Fri, 22 Feb 2008

GEOquery
Changed references from exprSet to ExpressionSet in the documentation to reflected changes that were made in the code.

[/GEOquery] permanent link

Tue, 15 Jan 2008

GEOquery
Removed the constantly-out-of-date count of samples in GEO from the vignette

[/GEOquery] permanent link

Mon, 07 Jan 2008

GEOquery
2.3.3
=====
* GSM and GDS parsing speedup of 20 to 50 FOLD

[/GEOquery] permanent link

Fri, 04 Jan 2008

GEOquery
* updated vignette to be more GSEMatrix centric for GSE data
* changed a single old "exprSet" instance to "ExpressionSet"

[/GEOquery] permanent link

Wed, 02 Jan 2008

GEOquery
2.3.2
=====
* Hopefully fixed GSEMatrix parsing on Windows. Thanks to Henrik Bengtsson and Uwe Ligges for pointers. The issue was download.file using text mode, which on Windows for .gz files causes problems.
* GSEMatrix parsing is now the default for getGEO when downloading GSE records. This ends up being many orders of magnitude faster for most GSE records.

[/GEOquery] permanent link

Tue, 01 Jan 2008

GEOquery
2.3.1
=====
* Tried adding back GSEMatrix parsing under Windows. Will see if it builds.

[/GEOquery] permanent link

Fri, 09 Nov 2007

GEOquery
Removed psfig from \usepackage{} in the .Rnw file of the following packages: MeasurementError.cor, GEOquery, rama, marray, aCGH, multtest, nnNorm, RMAGEML, ACME and bridge. Psfig/TeX was actually not needed by these vignettes. Besides Psfig/TeX has licensing issues and will be removed from our build machines.

[/GEOquery] permanent link