Bioc-devel November 2016

[Bioc-devel] problems installing cran dependencies with BioC devel in mac

13 msgs Nov 30

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Rodriguez Martinez, Andrea problems installing cran dependencies with BioC devel in mac Nov 30, 2016

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Vincent Carey problems installing cran dependencies with BioC devel in mac Nov 30, 2016

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Vincent Carey problems installing cran dependencies with BioC devel in mac Nov 30, 2016

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Rodriguez Martinez, Andrea problems installing cran dependencies with BioC devel in mac Nov 30, 2016

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Kasper Daniel Hansen problems installing cran dependencies with BioC devel in mac Nov 30, 2016

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Rodriguez Martinez, Andrea problems installing cran dependencies with BioC devel in mac Nov 30, 2016

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Kasper Daniel Hansen problems installing cran dependencies with BioC devel in mac Nov 30, 2016

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Rodriguez Martinez, Andrea problems installing cran dependencies with BioC devel in mac Nov 30, 2016

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Nitesh problems installing cran dependencies with BioC devel in mac Nov 30, 2016

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Rodriguez Martinez, Andrea problems installing cran dependencies with BioC devel in mac Nov 30, 2016

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Martin Morgan problems installing cran dependencies with BioC devel in mac Nov 30, 2016

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Sean Davis problems installing cran dependencies with BioC devel in mac Nov 30, 2016

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Dan Tenenbaum problems installing cran dependencies with BioC devel in mac Nov 30, 2016

[Bioc-devel] [Bioc-degel] AnnotationHub needed in the description of the ExperimentHubData

2 msgs Nov 30

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Marcin Kosiński AnnotationHub needed in the description of the ExperimentHubData Nov 30, 2016

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Obenchain, Valerie AnnotationHub needed in the description of the ExperimentHubData Nov 30, 2016

[Bioc-devel] Error processing scater vignette Mac OS X Sierra

2 msgs Nov 30

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Davis McCarthy Error processing scater vignette Mac OS X Sierra Nov 30, 2016

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Leonardo Collado Torres Error processing scater vignette Mac OS X Sierra Nov 30, 2016

[Bioc-devel] download stats

4 msgs Nov 29

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Hervé Pagès download stats Nov 8, 2016

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Kasper Daniel Hansen download stats Nov 8, 2016

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Antonio Colaprico download stats Nov 29, 2016

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Hervé Pagès download stats Nov 29, 2016

[Bioc-devel] svn and git-mirror not synced

5 msgs Nov 29

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Leif Väremo svn and git-mirror not synced Nov 28, 2016

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Martin Morgan svn and git-mirror not synced Nov 29, 2016

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Leif Väremo svn and git-mirror not synced Nov 29, 2016

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Martin Morgan svn and git-mirror not synced Nov 29, 2016

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Leif Väremo svn and git-mirror not synced Nov 29, 2016

[Bioc-devel] build report date - devel

2 msgs Nov 24

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Aurora Torrente build report date - devel Nov 24, 2016

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Obenchain, Valerie build report date - devel Nov 24, 2016

[Bioc-devel] Issue with biovizBase::parseArgsForAes(), likely just a namespace issue

2 msgs Nov 24

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Leonardo Collado Torres Issue with biovizBase::parseArgsForAes(), likely just a namespace issue Nov 23, 2016

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Michael Lawrence Issue with biovizBase::parseArgsForAes(), likely just a namespace issue Nov 24, 2016

[Bioc-devel] BiocStyle issue

5 msgs Nov 24

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Yu, Guangchuang BiocStyle issue Nov 22, 2016

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Leonardo Collado Torres BiocStyle issue Nov 22, 2016

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Yu, Guangchuang BiocStyle issue Nov 22, 2016

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Andrzej Oleś BiocStyle issue Nov 23, 2016

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Andrzej Oleś BiocStyle issue Nov 24, 2016

[Bioc-devel] Feedback wanted on design of fixed-width Ranges class

8 msgs Nov 23

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Peter Hickey Feedback wanted on design of fixed-width Ranges class Nov 23, 2016

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Vincent Carey Feedback wanted on design of fixed-width Ranges class Nov 23, 2016

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Vincent Carey Feedback wanted on design of fixed-width Ranges class Nov 23, 2016

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Peter Hickey Feedback wanted on design of fixed-width Ranges class Nov 23, 2016

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Ryan Feedback wanted on design of fixed-width Ranges class Nov 23, 2016

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Gabriel Becker Feedback wanted on design of fixed-width Ranges class Nov 23, 2016

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Ryan Feedback wanted on design of fixed-width Ranges class Nov 23, 2016

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Peter Hickey Feedback wanted on design of fixed-width Ranges class Nov 23, 2016

[Bioc-devel] Rgraphviz on ppc64le needs updated config.{sub, guess}

2 msgs Nov 23

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Daniel Axtens Rgraphviz on ppc64le needs updated config.{sub, guess} Nov 22, 2016

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Kasper Daniel Hansen Rgraphviz on ppc64le needs updated config.{sub, guess} Nov 23, 2016

[Bioc-devel] still issues with ggplot2/ggproto in Mac OS X, stable

2 msgs Nov 23

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Hervé Pagès still issues with ggplot2/ggproto in Mac OS X, stable Nov 22, 2016

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Ramon Diaz-Uriarte still issues with ggplot2/ggproto in Mac OS X, stable Nov 23, 2016

[Bioc-devel] Coverage test badge not updating

4 msgs Nov 22

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Hervé Pagès Coverage test badge not updating Nov 1, 2016

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Obenchain, Valerie Coverage test badge not updating Nov 18, 2016

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Leonardo Collado Torres Coverage test badge not updating Nov 18, 2016

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Obenchain, Valerie Coverage test badge not updating Nov 22, 2016

[Bioc-devel] still issues with ggplot2/ggproto in Mac OS X, stable

1 msg Nov 22

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Ramon Diaz-Uriarte still issues with ggplot2/ggproto in Mac OS X, stable Nov 22, 2016

[Bioc-devel] spb updates

1 msg Nov 22

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Shepherd, Lori spb updates Nov 22, 2016

[Bioc-devel] SRAdb::sraConvert returns results in arbitrary order

2 msgs Nov 21

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Ryan SRAdb::sraConvert returns results in arbitrary order Nov 17, 2016

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Jack Zhu SRAdb::sraConvert returns results in arbitrary order Nov 21, 2016

[Bioc-devel] svn permissions

2 msgs Nov 20

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Dan Tenenbaum svn permissions Nov 20, 2016

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Kasper Daniel Hansen svn permissions Nov 20, 2016

[Bioc-devel] svn permissions

1 msg Nov 20

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Kasper Daniel Hansen svn permissions Nov 20, 2016

[Bioc-devel] Bioc-devel, Travis & OS X build failure

1 msg Nov 20

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Alexey Sergushichev Bioc-devel, Travis & OS X build failure Nov 20, 2016

[Bioc-devel] GSL on Windows

2 msgs Nov 20

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Dan Tenenbaum GSL on Windows Nov 18, 2016

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Dong Li GSL on Windows Nov 20, 2016

[Bioc-devel] GSL on Windows

1 msg Nov 18

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Dong Li GSL on Windows Nov 18, 2016

[Bioc-devel] vmatchPattern Returns Out of Bounds Indices

4 msgs Nov 18

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Dario Strbenac vmatchPattern Returns Out of Bounds Indices Nov 16, 2016

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Hervé Pagès vmatchPattern Returns Out of Bounds Indices Nov 17, 2016

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Dario Strbenac vmatchPattern Returns Out of Bounds Indices Nov 18, 2016

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Hervé Pagès vmatchPattern Returns Out of Bounds Indices Nov 18, 2016

[Bioc-devel] adding new features to current release branch

4 msgs Nov 17

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Anand MT adding new features to current release branch Nov 17, 2016

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Martin Morgan adding new features to current release branch Nov 17, 2016

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Kasper Daniel Hansen adding new features to current release branch Nov 17, 2016

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Anand MT adding new features to current release branch Nov 17, 2016

[Bioc-devel] OrganismDb package for Drosophila.melanogaster

5 msgs Nov 16

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Pariksheet Nanda OrganismDb package for Drosophila.melanogaster Nov 14, 2016

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Obenchain, Valerie OrganismDb package for Drosophila.melanogaster Nov 15, 2016

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Martin Morgan OrganismDb package for Drosophila.melanogaster Nov 15, 2016

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Martin Morgan OrganismDb package for Drosophila.melanogaster Nov 15, 2016

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Pariksheet Nanda OrganismDb package for Drosophila.melanogaster Nov 16, 2016

[Bioc-devel] Feasibility of Parallel Extraction of Matches with extractAllMatches

2 msgs Nov 16

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Dario Strbenac Feasibility of Parallel Extraction of Matches with extractAllMatches Nov 16, 2016

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Hervé Pagès Feasibility of Parallel Extraction of Matches with extractAllMatches Nov 16, 2016

[Bioc-devel] Bioconductor devel BUILD/CHECK not running

2 msgs Nov 16

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Hoffman, Gabriel Bioconductor devel BUILD/CHECK not running Nov 16, 2016

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Martin Morgan Bioconductor devel BUILD/CHECK not running Nov 16, 2016

[Bioc-devel] Reset SVN repo to earlier state

3 msgs Nov 16

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Lukas Weber Reset SVN repo to earlier state Nov 16, 2016

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Martin Morgan Reset SVN repo to earlier state Nov 16, 2016

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Lukas Weber Reset SVN repo to earlier state Nov 16, 2016

[Bioc-devel] Help needed to reproduce my crash report

2 msgs Nov 16

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Ted Wong Help needed to reproduce my crash report Nov 15, 2016

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Martin Morgan Help needed to reproduce my crash report Nov 16, 2016

[Bioc-devel] stuck in setting up Bioconductor GitHub

2 msgs Nov 16

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Dan Tenenbaum stuck in setting up Bioconductor GitHub Nov 15, 2016

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Leif Väremo stuck in setting up Bioconductor GitHub Nov 16, 2016

[Bioc-devel] single package builder

1 msg Nov 15

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Shepherd, Lori single package builder Nov 15, 2016

[Bioc-devel] Files removed from svn are not disappearing from Git mirror

2 msgs Nov 15

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James Collins Files removed from svn are not disappearing from Git mirror Nov 14, 2016

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James Collins Files removed from svn are not disappearing from Git mirror Nov 15, 2016

[Bioc-devel] Files removed from svn are not disappearing from Git mirror

2 msgs Nov 15

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Hervé Pagès Files removed from svn are not disappearing from Git mirror Nov 14, 2016

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Martin Morgan Files removed from svn are not disappearing from Git mirror Nov 15, 2016

[Bioc-devel] stuck in setting up Bioconductor GitHub

1 msg Nov 15

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Leif Väremo stuck in setting up Bioconductor GitHub Nov 15, 2016

[Bioc-devel] recent changes in ggplot2 break some packages

4 msgs Nov 14

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Ramon Diaz-Uriarte recent changes in ggplot2 break some packages Nov 14, 2016

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Diego Diez recent changes in ggplot2 break some packages Nov 14, 2016

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Ramon Diaz-Uriarte recent changes in ggplot2 break some packages Nov 14, 2016

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Hervé Pagès recent changes in ggplot2 break some packages Nov 14, 2016

[Bioc-devel] programming note: return() is a function call

2 msgs Nov 14

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Martin Morgan programming note: return() is a function call Nov 14, 2016

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Rainer Johannes programming note: return() is a function call Nov 14, 2016

[Bioc-devel] unexpected error : BiocInstaller - unable to access the index for reporitory

1 msg Nov 14

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Jurat Shayidin unexpected error : BiocInstaller - unable to access the index for reporitory Nov 14, 2016

[Bioc-devel] makeTxDbFromGFF drops genes which have multiple chromosome locations. (with iGenome GTF)

4 msgs Nov 13

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Jialin Ma makeTxDbFromGFF drops genes which have multiple chromosome locations. (with iGenome GTF) Nov 13, 2016

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Vincent Carey makeTxDbFromGFF drops genes which have multiple chromosome locations. (with iGenome GTF) Nov 13, 2016

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Jialin Ma makeTxDbFromGFF drops genes which have multiple chromosome locations. (with iGenome GTF) Nov 13, 2016

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Martin Morgan makeTxDbFromGFF drops genes which have multiple chromosome locations. (with iGenome GTF) Nov 13, 2016

[Bioc-devel] Question about sumbition process and biocviews

4 msgs Nov 12

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Ioannis Vardaxis Question about sumbition process and biocviews Nov 8, 2016

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Martin Morgan Question about sumbition process and biocviews Nov 8, 2016

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Ioannis Vardaxis Question about sumbition process and biocviews Nov 12, 2016

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Martin Morgan Question about sumbition process and biocviews Nov 12, 2016

[Bioc-devel] Fwd: can't install CRAN Packages after installed devel version of R and Bioc 3.4

3 msgs Nov 11

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Dan Tenenbaum can't install CRAN Packages after installed devel version of R and Bioc 3.4 Nov 11, 2016

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Jurat Shayidin can't install CRAN Packages after installed devel version of R and Bioc 3.4 Nov 11, 2016

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Dan Tenenbaum can't install CRAN Packages after installed devel version of R and Bioc 3.4 Nov 11, 2016

[Bioc-devel] Fwd: can't install CRAN Packages after installed devel version of R and Bioc 3.4

6 msgs Nov 11

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Jurat Shayidin can't install CRAN Packages after installed devel version of R and Bioc 3.4 Nov 11, 2016

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Martin Morgan can't install CRAN Packages after installed devel version of R and Bioc 3.4 Nov 11, 2016

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Jurat Shayidin can't install CRAN Packages after installed devel version of R and Bioc 3.4 Nov 11, 2016

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Martin Morgan can't install CRAN Packages after installed devel version of R and Bioc 3.4 Nov 11, 2016

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Kasper Daniel Hansen can't install CRAN Packages after installed devel version of R and Bioc 3.4 Nov 11, 2016

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Jurat Shayidin can't install CRAN Packages after installed devel version of R and Bioc 3.4 Nov 11, 2016

[Bioc-devel] can't install CRAN Packages after installed devel version of R and Bioc 3.4

1 msg Nov 11

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Jurat Shayidin can't install CRAN Packages after installed devel version of R and Bioc 3.4 Nov 11, 2016

[Bioc-devel] can't install CRAN Packages after installed devel version of R and Bioc 3.4

2 msgs Nov 11

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Jurat Shayidin can't install CRAN Packages after installed devel version of R and Bioc 3.4 Nov 11, 2016

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Martin Morgan can't install CRAN Packages after installed devel version of R and Bioc 3.4 Nov 11, 2016

[Bioc-devel] lumi package is not available

5 msgs Nov 10

M

Martin Morgan lumi package is not available Nov 9, 2016

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James W. MacDonald lumi package is not available Nov 9, 2016

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Martin Morgan lumi package is not available Nov 9, 2016

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James W. MacDonald lumi package is not available Nov 9, 2016

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Gang Feng lumi package is not available Nov 10, 2016

[Bioc-devel] Subversion Log Stalled

2 msgs Nov 10

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Dario Strbenac Subversion Log Stalled Nov 10, 2016

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Martin Morgan Subversion Log Stalled Nov 10, 2016

[Bioc-devel] can't fix the bug: Error: 'devel' version requires a more recent R

2 msgs Nov 10

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Jurat Shayidin can't fix the bug: Error: 'devel' version requires a more recent R Nov 10, 2016

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Martin Morgan can't fix the bug: Error: 'devel' version requires a more recent R Nov 10, 2016

[Bioc-devel] A handful of check to follow up on R CMD BiocCheck

11 msgs Nov 10

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Kevin RUE A handful of check to follow up on R CMD BiocCheck Nov 2, 2016

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Kasper Daniel Hansen A handful of check to follow up on R CMD BiocCheck Nov 2, 2016

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Martin Morgan A handful of check to follow up on R CMD BiocCheck Nov 2, 2016

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Kasper Daniel Hansen A handful of check to follow up on R CMD BiocCheck Nov 2, 2016

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Kevin RUE A handful of check to follow up on R CMD BiocCheck Nov 2, 2016

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Kevin RUE A handful of check to follow up on R CMD BiocCheck Nov 2, 2016

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Kevin RUE A handful of check to follow up on R CMD BiocCheck Nov 3, 2016

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Kevin RUE A handful of check to follow up on R CMD BiocCheck Nov 3, 2016

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Martin Morgan A handful of check to follow up on R CMD BiocCheck Nov 9, 2016

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Kevin RUE A handful of check to follow up on R CMD BiocCheck Nov 10, 2016

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Martin Morgan A handful of check to follow up on R CMD BiocCheck Nov 10, 2016

[Bioc-devel] Error with InteractionSet package

2 msgs Nov 8

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Ioannis Vardaxis Error with InteractionSet package Nov 8, 2016

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Aaron Lun Error with InteractionSet package Nov 8, 2016

[Bioc-devel] download stats

2 msgs Nov 8

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Kasper Daniel Hansen download stats Nov 8, 2016

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Kasper Daniel Hansen download stats Nov 8, 2016

[Bioc-devel] Availability shield URLs

3 msgs Nov 8

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Leonardo Collado Torres Availability shield URLs Nov 2, 2016

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Martin Morgan Availability shield URLs Nov 8, 2016

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Leonardo Collado Torres Availability shield URLs Nov 8, 2016

[Bioc-devel] Bug in setdiff() for signature 'IRangesList, IRangesList'?

3 msgs Nov 7

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Leonard Goldstein Bug in setdiff() for signature 'IRangesList, IRangesList'? Nov 7, 2016

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Michael Lawrence Bug in setdiff() for signature 'IRangesList, IRangesList'? Nov 7, 2016

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Leonard Goldstein Bug in setdiff() for signature 'IRangesList, IRangesList'? Nov 7, 2016

[Bioc-devel] Question about sumbition process and biocviews

8 msgs Nov 7

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Ioannis Vardaxis Question about sumbition process and biocviews Nov 6, 2016

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Martin Morgan Question about sumbition process and biocviews Nov 6, 2016

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Ioannis Vardaxis Question about sumbition process and biocviews Nov 6, 2016

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Martin Morgan Question about sumbition process and biocviews Nov 6, 2016

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Ioannis Vardaxis Question about sumbition process and biocviews Nov 7, 2016

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Martin Morgan Question about sumbition process and biocviews Nov 7, 2016

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Ioannis Vardaxis Question about sumbition process and biocviews Nov 7, 2016

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Martin Morgan Question about sumbition process and biocviews Nov 7, 2016

[Bioc-devel] Bioc-devel Digest, Vol 152, Issue 10

2 msgs Nov 6

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rcaloger Bioc-devel Digest, Vol 152, Issue 10 Nov 6, 2016

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Dario Strbenac Bioc-devel Digest, Vol 152, Issue 10 Nov 6, 2016

[Bioc-devel] chimera Attempts to Open Non-existent File

3 msgs Nov 6

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Dario Strbenac chimera Attempts to Open Non-existent File Nov 2, 2016

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James W. MacDonald chimera Attempts to Open Non-existent File Nov 3, 2016

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Dario Strbenac chimera Attempts to Open Non-existent File Nov 6, 2016

[Bioc-devel] Question about sumbition process and biocviews

2 msgs Nov 5

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Ioannis Vardaxis Question about sumbition process and biocviews Nov 5, 2016

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Martin Morgan Question about sumbition process and biocviews Nov 5, 2016

[Bioc-devel] Problem with git-mirror

1 msg Nov 4

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Kevin RUE Problem with git-mirror Nov 4, 2016

[Bioc-devel] GenomeInfoDb::Seqinfo(genome) broken?

7 msgs Nov 3

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Raymond Cavalcante GenomeInfoDb::Seqinfo(genome) broken? Nov 3, 2016

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Vincent Carey GenomeInfoDb::Seqinfo(genome) broken? Nov 3, 2016

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Raymond Cavalcante GenomeInfoDb::Seqinfo(genome) broken? Nov 3, 2016

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Michael Lawrence GenomeInfoDb::Seqinfo(genome) broken? Nov 3, 2016

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Hervé Pagès GenomeInfoDb::Seqinfo(genome) broken? Nov 3, 2016

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Hervé Pagès GenomeInfoDb::Seqinfo(genome) broken? Nov 3, 2016

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Raymond Cavalcante GenomeInfoDb::Seqinfo(genome) broken? Nov 3, 2016

[Bioc-devel] What are the differences between Bioc Views: MethylSeq, DNAMethylation and DifferentialMethylation

2 msgs Nov 3

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Marcin Kosiński What are the differences between Bioc Views: MethylSeq, DNAMethylation and DifferentialMethylation Nov 3, 2016

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Marcin Kosiński What are the differences between Bioc Views: MethylSeq, DNAMethylation and DifferentialMethylation Nov 3, 2016

[Bioc-devel] Coverage test badge not updating

1 msg Nov 1

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Leonardo Collado Torres Coverage test badge not updating Nov 1, 2016

[Bioc-devel] FlipFlop Ignores Read Strand and Requires Antiquated File Formats

2 msgs Nov 1

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Dario Strbenac FlipFlop Ignores Read Strand and Requires Antiquated File Formats Oct 31, 2016

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Wolfgang Huber FlipFlop Ignores Read Strand and Requires Antiquated File Formats Nov 1, 2016