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Bioc-devel September 2015

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(crazy) copy-on-modification bug in GenomicFeatures

2 msgs
Kasper Daniel Hansen (crazy) copy-on-modification bug in GenomicFeatures Sep 21, 2015 Hervé Pagès (crazy) copy-on-modification bug in GenomicFeatures Sep 22, 2015

Adding a lengths() method to List class

8 msgs
Peter Hickey Adding a lengths() method to List class Sep 28, 2015 Michael Lawrence Adding a lengths() method to List class Sep 28, 2015 Cook, Malcolm Adding a lengths() method to List class Sep 29, 2015 Michael Lawrence Adding a lengths() method to List class Sep 29, 2015 Cook, Malcolm Adding a lengths() method to List class Sep 29, 2015 Hervé Pagès Adding a lengths() method to List class Sep 30, 2015 Michael Lawrence Adding a lengths() method to List class Sep 30, 2015 Hervé Pagès Adding a lengths() method to List class Sep 30, 2015

AnnotationHub: cleanup

6 msgs
Kasper Daniel Hansen AnnotationHub: cleanup Sep 14, 2015 Martin Morgan AnnotationHub: cleanup Sep 14, 2015 Kasper Daniel Hansen AnnotationHub: cleanup Sep 15, 2015 Martin Morgan AnnotationHub: cleanup Sep 15, 2015 Vincent Carey AnnotationHub: cleanup Sep 17, 2015 Kasper Daniel Hansen AnnotationHub: cleanup Sep 17, 2015

Announcing newtest coverage shields

3 msgs
Andrzej Oleś Announcing newtest coverage shields Sep 10, 2015 Dan Tenenbaum Announcing newtest coverage shields Sep 10, 2015 Andrzej Oleś Announcing newtest coverage shields Sep 15, 2015

BiocCheck failing

2 msgs
Samuel E Zimmerman BiocCheck failing Sep 30, 2015 Dan Tenenbaum BiocCheck failing Sep 30, 2015

BiocCheck required import

7 msgs
Thomas Lin Pedersen BiocCheck required import Sep 3, 2015 Dan Tenenbaum BiocCheck required import Sep 3, 2015 Dan Tenenbaum BiocCheck required import Sep 3, 2015 Thomas Lin Pedersen BiocCheck required import Sep 3, 2015 Dan Tenenbaum BiocCheck required import Sep 3, 2015 Thomas Lin Pedersen BiocCheck required import Sep 3, 2015 Dan Tenenbaum BiocCheck required import Sep 3, 2015

BiocParallel::bpvec() and DNAStringSet objects, problem

3 msgs
Robert Castelo BiocParallel::bpvec() and DNAStringSet objects, problem Sep 2, 2015 Obenchain, Valerie BiocParallel::bpvec() and DNAStringSet objects, problem Sep 4, 2015 Robert Castelo BiocParallel::bpvec() and DNAStringSet objects, problem Sep 4, 2015

Bioconductor 3.2 release schedule now available

1 msg
Dan Tenenbaum Bioconductor 3.2 release schedule now available Sep 4, 2015

Bioconductor Git/GitHub Mirrors

1 msg
Mike Bioconductor Git/GitHub Mirrors Sep 11, 2015

Change package maintainer

2 msgs
Matthew McCall Change package maintainer Sep 28, 2015 Dan Tenenbaum Change package maintainer Sep 28, 2015

Dependencies in Bioconductor dockers

1 msg
Nathan Sheffield Dependencies in Bioconductor dockers Aug 31, 2015

European Bioconductor Developers Meeting

1 msg
Mark Dunning European Bioconductor Developers Meeting Sep 3, 2015

GEOquery: missing ID causes GDS2eSet to crash

1 msg
Ludwig Geistlinger GEOquery: missing ID causes GDS2eSet to crash Sep 17, 2015

Issue on MEDIPS.CpGenrich function

1 msg
Welliton Souza Issue on MEDIPS.CpGenrich function Sep 16, 2015

Issues with R CMD check and an ExperimentalData package

4 msgs
Christian Arnold Issues with R CMD check and an ExperimentalData package Sep 22, 2015 Dan Tenenbaum Issues with R CMD check and an ExperimentalData package Sep 22, 2015 Dan Tenenbaum Issues with R CMD check and an ExperimentalData package Sep 22, 2015 Andrzej Oleś Issues with R CMD check and an ExperimentalData package Sep 23, 2015

KEGG REST issue

2 msgs
Luo Weijun KEGG REST issue Sep 23, 2015 Dan Tenenbaum KEGG REST issue Sep 23, 2015

Merging git mirror and previous git repo ?

5 msgs
Neumann, Steffen Merging git mirror and previous git repo ? Sep 18, 2015 Robert M. Flight Merging git mirror and previous git repo ? Sep 18, 2015 Neumann, Steffen Merging git mirror and previous git repo ? Sep 21, 2015 Jim Hester Merging git mirror and previous git repo ? Sep 21, 2015 Mike Merging git mirror and previous git repo ? Sep 22, 2015

Open developer position

1 msg
Hector Corrada Bravo Open developer position Sep 17, 2015

Package deprecation and reacceptance

2 msgs
Glyn Bradley Package deprecation and reacceptance Sep 16, 2015 Dan Tenenbaum Package deprecation and reacceptance Sep 16, 2015

Packge Build Status Notifications Missing

4 msgs
Malcolm Perry Packge Build Status Notifications Missing Sep 23, 2015 Dan Tenenbaum Packge Build Status Notifications Missing Sep 23, 2015 Malcolm Perry Packge Build Status Notifications Missing Sep 23, 2015 Dan Tenenbaum Packge Build Status Notifications Missing Sep 23, 2015

Problem with git svn rebase

2 msgs
Witold E Wolski Problem with git svn rebase Sep 7, 2015 Dan Tenenbaum Problem with git svn rebase Sep 7, 2015

Problem with the git mirror when committing to SVN

5 msgs
Diego Diez Problem with the git mirror when committing to SVN Sep 7, 2015 Diego Diez Problem with the git mirror when committing to SVN Sep 18, 2015 Jesper Gådin Problem with the git mirror when committing to SVN Sep 18, 2015 Diego Diez Problem with the git mirror when committing to SVN Sep 18, 2015 Jesper Gådin Problem with the git mirror when committing to SVN Sep 29, 2015

Proper way of documenting a BiocGenerics generics with extended prototypes

7 msgs
Christian Arnold Proper way of documenting a BiocGenerics generics with extended prototypes Sep 20, 2015 Jim Hester Proper way of documenting a BiocGenerics generics with extended prototypes Sep 20, 2015 Kasper Daniel Hansen Proper way of documenting a BiocGenerics generics with extended prototypes Sep 20, 2015 Hervé Pagès Proper way of documenting a BiocGenerics generics with extended prototypes Sep 20, 2015 Christian Arnold Proper way of documenting a BiocGenerics generics with extended prototypes Sep 21, 2015 Hervé Pagès Proper way of documenting a BiocGenerics generics with extended prototypes Sep 21, 2015 Hervé Pagès Proper way of documenting a BiocGenerics generics with extended prototypes Sep 21, 2015

S4 classes extending GRangesList

3 msgs
Leonard Goldstein S4 classes extending GRangesList Sep 29, 2015 Hervé Pagès S4 classes extending GRangesList Sep 29, 2015 Leonard Goldstein S4 classes extending GRangesList Sep 29, 2015

Shouldn't we distinguish between package-specific and dependency errors?]

1 msg
Dan Tenenbaum Shouldn't we distinguish between package-specific and dependency errors?] Sep 25, 2015

Shouldn't we distinguish between package-specific and dependency errors?

9 msgs
Ludwig Geistlinger Shouldn't we distinguish between package-specific and dependency errors? Sep 24, 2015 Vincent Carey Shouldn't we distinguish between package-specific and dependency errors? Sep 24, 2015 Ludwig Geistlinger Shouldn't we distinguish between package-specific and dependency errors? Sep 24, 2015 Wolfgang Huber Shouldn't we distinguish between package-specific and dependency errors? Sep 24, 2015 Andrzej Oleś Shouldn't we distinguish between package-specific and dependency errors? Sep 24, 2015 Michael Lawrence Shouldn't we distinguish between package-specific and dependency errors? Sep 24, 2015 Dan Tenenbaum Shouldn't we distinguish between package-specific and dependency errors? Sep 24, 2015 Andrzej Oleś Shouldn't we distinguish between package-specific and dependency errors? Sep 24, 2015 Dan Tenenbaum Shouldn't we distinguish between package-specific and dependency errors? Sep 24, 2015

Shouldn't we distinguish between package-specific and dependency errors?]

7 msgs
Ludwig Geistlinger Shouldn't we distinguish between package-specific and dependency errors?] Sep 24, 2015 Ludwig Geistlinger Shouldn't we distinguish between package-specific and dependency errors?] Sep 24, 2015 Michael Lawrence Shouldn't we distinguish between package-specific and dependency errors?] Sep 24, 2015 Gabriel Becker Shouldn't we distinguish between package-specific and dependency errors?] Sep 24, 2015 Martin Morgan Shouldn't we distinguish between package-specific and dependency errors?] Sep 24, 2015 Kasper Daniel Hansen Shouldn't we distinguish between package-specific and dependency errors?] Sep 24, 2015 Angerer, Philipp Shouldn't we distinguish between package-specific and dependency errors?] Sep 25, 2015

SummarizedExperiment with alternate back end

13 msgs
Vincent Carey SummarizedExperiment with alternate back end Sep 18, 2015 Hervé Pagès SummarizedExperiment with alternate back end Sep 18, 2015 Tim Triche, Jr. SummarizedExperiment with alternate back end Sep 18, 2015 Peter Haverty SummarizedExperiment with alternate back end Sep 18, 2015 Vincent Carey SummarizedExperiment with alternate back end Sep 18, 2015 Kasper Daniel Hansen SummarizedExperiment with alternate back end Sep 18, 2015 Ryan SummarizedExperiment with alternate back end Sep 18, 2015 Peter Haverty SummarizedExperiment with alternate back end Sep 18, 2015 Michael Lawrence SummarizedExperiment with alternate back end Sep 18, 2015 Ryan SummarizedExperiment with alternate back end Sep 18, 2015 Martin Morgan SummarizedExperiment with alternate back end Sep 19, 2015 Benilton Carvalho SummarizedExperiment with alternate back end Sep 19, 2015 Vincent Carey SummarizedExperiment with alternate back end Sep 19, 2015

Txdb Issues - all exon names are NA's ?

6 msgs
Arora, Sonali Txdb Issues - all exon names are NA's ? Sep 22, 2015 Hervé Pagès Txdb Issues - all exon names are NA's ? Sep 22, 2015 Marc Carlson Txdb Issues - all exon names are NA's ? Sep 22, 2015 Arora, Sonali Txdb Issues - all exon names are NA's ? Sep 22, 2015 Hervé Pagès Txdb Issues - all exon names are NA's ? Sep 22, 2015 Marc Carlson Txdb Issues - all exon names are NA's ? Sep 22, 2015

adding a coathor to the tracker

1 msg
Stepan Grinek adding a coathor to the tracker Sep 17, 2015

as.character method for GenomicRanges?

5 msgs
Michael Lawrence as.character method for GenomicRanges? Sep 15, 2015 Michael Love as.character method for GenomicRanges? Sep 15, 2015 Hervé Pagès as.character method for GenomicRanges? Sep 15, 2015 Tim Triche, Jr. as.character method for GenomicRanges? Sep 15, 2015 Hervé Pagès as.character method for GenomicRanges? Sep 17, 2015

http://bioconductor.org/about/core-team/ could probably stand an update

1 msg
Dan Tenenbaum http://bioconductor.org/about/core-team/ could probably stand an update Sep 8, 2015

http://bioconductor.org/about/core-team/ could probably stand an update

1 msg
Tim Triche, Jr. http://bioconductor.org/about/core-team/ could probably stand an update Sep 8, 2015

new Bioconductor team members

5 msgs
Obenchain, Valerie new Bioconductor team members Sep 8, 2015 Michael Lawrence new Bioconductor team members Sep 8, 2015 Zhu, Lihua (Julie) new Bioconductor team members Sep 8, 2015 Ou, Jianhong new Bioconductor team members Sep 9, 2015 Jan Janečka new Bioconductor team members Sep 11, 2015

packages marked as deprecated in the upcoming release

1 msg
Dan Tenenbaum packages marked as deprecated in the upcoming release Sep 30, 2015

rgl on windows build servers

4 msgs
Kasper Daniel Hansen rgl on windows build servers Sep 23, 2015 Dan Tenenbaum rgl on windows build servers Sep 23, 2015 Kasper Daniel Hansen rgl on windows build servers Sep 23, 2015 Dan Tenenbaum rgl on windows build servers Sep 23, 2015

rtracklayer: BigWigFIle on Windows

4 msgs
Kasper Daniel Hansen rtracklayer: BigWigFIle on Windows Sep 17, 2015 Michael Lawrence rtracklayer: BigWigFIle on Windows Sep 17, 2015 Kasper Daniel Hansen rtracklayer: BigWigFIle on Windows Sep 17, 2015 Michael Lawrence rtracklayer: BigWigFIle on Windows Sep 17, 2015

search broken on bioconductor.org

2 msgs
Ryan search broken on bioconductor.org Sep 7, 2015 Dan Tenenbaum search broken on bioconductor.org Sep 7, 2015

seq2pathway_1.1.5 is available for testing

1 msg
Holly seq2pathway_1.1.5 is available for testing Sep 22, 2015

some issues with windows build under stable bio

1 msg
Kasper Daniel Hansen some issues with windows build under stable bio Sep 14, 2015

submitted package update

3 msgs
Zhilong Jia submitted package update Sep 1, 2015 Sean Davis submitted package update Sep 1, 2015 Zhilong Jia submitted package update Sep 1, 2015

svn cleanup failing on macosx

1 msg
Vincent Carey svn cleanup failing on macosx Sep 9, 2015

timeout on perceval server macos snow leopard

3 msgs
Giorgio Melloni timeout on perceval server macos snow leopard Sep 4, 2015 Obenchain, Valerie timeout on perceval server macos snow leopard Sep 4, 2015 Giorgio Melloni timeout on perceval server macos snow leopard Sep 8, 2015