Bioc-devel - March 2017 - Date View

Friday, March 31, 2017 14 emails

Obenchain, Valerie Using LaTeX packages in vignettes Kevin RUE condition tests on vectors with length greater than 1 Martin Morgan condition tests on vectors with length greater than 1 Obenchain, Valerie Bioconductor 3.5 release: March 31 deadlines Zimmermann, Michael T., Ph.D. masking functions Obenchain, Valerie Error in veracruz2: object 'R_svmtrain' not found Kevin RUE condition tests on vectors with length greater than 1 Sean Davis Question about R functions Vincent Carey masking functions Martin Morgan Cannot find SummarizedExperiment's function assays() Wolfgang Huber Question about R functions Sokratis Kariotis Cannot find SummarizedExperiment's function assays() Mattia Chiesa Error in veracruz2: object 'R_svmtrain' not found Ramon Diaz-Uriarte segfault when building in veracruz2 for BioC 3.5

Thursday, March 30, 2017 9 emails

Zimmermann, Michael T., Ph.D. masking functions Juan David Henao Sanchez Question about R functions Nathan Sheffield Question about R functions Jing Wang Question about R functions Michael Lawrence The story of tracing a derfinder bug on OSX that sometimes popped up, sometimes it didn't. Related to IRanges/S4Vectors '$<-' Martin Morgan Cannot find SummarizedExperiment's function assays() Janssen-10, R.R.E. Using LaTeX packages in vignettes Sokratis Kariotis Cannot find SummarizedExperiment's function assays() Riebenbauer, Thomas Trouble checking out svn with username and password

Wednesday, March 29, 2017 30 emails

Hervé Pagès The story of tracing a derfinder bug on OSX that sometimes popped up, sometimes it didn't. Related to IRanges/S4Vectors '$<-' Hai Fang Problem for Biostrings? Mohammad Tanvir Ahamed Problem with champ.load ( wateRmelon::beadcount function ) Hervé Pagès Problem for Biostrings? Hervé Pagès pc algorithm library missing on linux builder Hai Fang Problem for Biostrings? Mohammad Tanvir Ahamed Problem with champ.load (Package ChAMP) Hervé Pagès condition tests on vectors with length greater than 1 Martin Morgan condition tests on vectors with length greater than 1 Martin Morgan condition tests on vectors with length greater than 1 Obenchain, Valerie Bioconductor 3.5 release: contributed annotation packages Henrik Bengtsson Git Transition Plan Welliton Souza Recommendations for Shiny app on Bioconductor Tyler Smith Recommendations for Shiny app on Bioconductor Riebenbauer, Thomas Trouble checking out svn with username and password Turaga, Nitesh Git Transition Plan Shepherd, Lori Error loading rtracklayer Malcolm Perry Error loading rtracklayer Michael Lawrence Problem for Biostrings? Shepherd, Lori Problem for Biostrings? Martin Morgan Recommendations for Shiny app on Bioconductor Jurat Shayidin Error loading rtracklayer Michael Lawrence Error loading rtracklayer Shepherd, Lori Error loading rtracklayer Malcolm Perry Error loading rtracklayer Hai Fang Problem for Biostrings? Vladimir Kiselev Recommendations for Shiny app on Bioconductor Welliton Souza Recommendations for Shiny app on Bioconductor Pirkl Martin pc algorithm library missing on linux builder Martin Morgan Problem to install bioconductor for R devel (3.5)

Tuesday, March 28, 2017 2 emails

Dan Tenenbaum Problem to install bioconductor for R devel (3.5) Mohammad Tanvir Ahamed Problem to install bioconductor for R devel (3.5)

Monday, March 27, 2017 11 emails

Dan Tenenbaum Something about time out errors Martin Morgan Something about time out errors Michael Lawrence Cannot find SummarizedExperiment's function assays() Marcel Ramos Cannot find SummarizedExperiment's function assays() Rainer Johannes Something about time out errors Michael Lawrence The story of tracing a derfinder bug on OSX that sometimes popped up, sometimes it didn't. Related to IRanges/S4Vectors '$<-' Martin Morgan Something about time out errors Aimin Yan Something about time out errors Michael Lawrence The story of tracing a derfinder bug on OSX that sometimes popped up, sometimes it didn't. Related to IRanges/S4Vectors '$<-' Sokratis Kariotis Cannot find SummarizedExperiment's function assays() Martin Morgan The story of tracing a derfinder bug on OSX that sometimes popped up, sometimes it didn't. Related to IRanges/S4Vectors '$<-'

Sunday, March 26, 2017 1 email

Obenchain, Valerie Rdevel on Windows

Friday, March 24, 2017 10 emails

cstrato xps build problem on veracruz2 Hervé Pagès xps build problem on veracruz2 cstrato xps build problem on veracruz2 Hervé Pagès xps build problem on veracruz2 cstrato xps build problem on veracruz2 Hervé Pagès xps build problem on veracruz2 Federico Marini Rdevel on Windows cstrato xps build problem on veracruz2 Romero, Juan Pablo Unit Tests & Test Coverage Hervé Pagès Unit Tests & Test Coverage

Thursday, March 23, 2017 19 emails

Kasper Daniel Hansen Unit tests Dan Tenenbaum Unit tests 张腾 Unit tests Alicia Schep questions about windows build execute permissions and R version dependency Dan Tenenbaum xps build problem on veracruz2 Alexey Sergushichev Incorrect order of installing dependencies on OS X in bioc-devel in travis Hervé Pagès Incorrect order of installing dependencies on OS X in bioc-devel in travis Alexey Sergushichev Incorrect order of installing dependencies on OS X in bioc-devel in travis Hervé Pagès Unit Tests & Test Coverage Hervé Pagès xps build problem on veracruz2 Obenchain, Valerie Bioconductor 3.5 release: deprecated packages cstrato xps build problem on veracruz2 Obenchain, Valerie Bioconductor 3.5 release: deprecated packages Hervé Pagès xps build problem on veracruz2 Obenchain, Valerie xps build problem on veracruz2 Leonardo Collado Torres questions about windows build execute permissions and R version dependency cstrato xps build problem on veracruz2 Romero, Juan Pablo Unit Tests & Test Coverage Martin Morgan questions about windows build execute permissions and R version dependency

Wednesday, March 22, 2017 19 emails

Tuesday, March 21, 2017 8 emails

Obenchain, Valerie tximport fails to build on Windows Ryan segfault in csaw native code Martin Morgan The story of tracing a derfinder bug on OSX that sometimes popped up, sometimes it didn't. Related to IRanges/S4Vectors '$<-' Hervé Pagès The story of tracing a derfinder bug on OSX that sometimes popped up, sometimes it didn't. Related to IRanges/S4Vectors '$<-' Monther Alhamdoosh Citation of an accompanying paper Leonardo Collado Torres The story of tracing a derfinder bug on OSX that sometimes popped up, sometimes it didn't. Related to IRanges/S4Vectors '$<-' Alina Selega Citation of an accompanying paper Robert M. Flight Package not being built on Windows or Mac

Monday, March 20, 2017 9 emails

Hervé Pagès Package not being built on Windows or Mac Dan Tenenbaum Package not being built on Windows or Mac James W. MacDonald Package not being built on Windows or Mac Robert M. Flight Package not being built on Windows or Mac Michael Love tximport fails to build on Windows Obenchain, Valerie Bioconductor 3.5 release Nicholas Clark developing R package for new release Martin Morgan Perl version issue with building Rhtslib James W. MacDonald developing R package for new release

Sunday, March 19, 2017 1 email

Martin Morgan Writing examples for accessing web API

Friday, March 17, 2017 6 emails

Nicholas Clark developing R package for new release Shepherd, Lori new package submission deadline for Bioconductor 3.5 Dinakar Kulkarni Perl version issue with building Rhtslib Sadiq Saleh Update on package evaluation Vincent Carey Update devel branch Ines de Santiago Update devel branch

Thursday, March 16, 2017 8 emails

Tyler Smith release schedule Obenchain, Valerie release schedule Tyler Smith release schedule Martin Morgan Question on the build and biocheck of the package Shepherd, Lori Question on the build and biocheck of the package Ayush Raman Question on the build and biocheck of the package Hervé Pagès Question on the build and biocheck of the package Martin Morgan Conference: BioC 2017: Where Software and Biology Connect, July 26 - 28, Boston MA

Wednesday, March 15, 2017 1 email

Ayush Raman Question on the build and biocheck of the package

Tuesday, March 14, 2017 5 emails

Hervé Pagès GRangesList Conversion Fails For Unstranded Sequencing Data Obenchain, Valerie enable windows build for eiR Kevin Horan enable windows build for eiR Ulrich Bodenhofer MSA Consensus Bernat Gel Chromosome order in GRangesForUCSCGenome

Monday, March 13, 2017 8 emails

Dario Strbenac GRangesList Conversion Fails For Unstranded Sequencing Data Jason.Ross at csiro.au Bioconductor and R 3.3.3: Error in c(x, values) : could not find symbol "recursive" in environment of the generic function Obenchain, Valerie devel builds: oaxaca phase out Natalie Stephenson MSA Consensus Michael Lawrence Chromosome order in GRangesForUCSCGenome Shepherd, Lori question on package build 张腾 question on package build Bernat Gel Chromosome order in GRangesForUCSCGenome

Saturday, March 11, 2017 1 email

Sindre Lee DEXseq for only ONE gene

Friday, March 10, 2017 5 emails

Wolfgang Huber R long vectors not supported yet on R 3.3.2 Martin Morgan GitHub mirror not synced for GenomicTuples Martin Morgan SVN E155000 GenVisR package Zach Skidmore SVN E155000 GenVisR package Wolfgang Huber R long vectors not supported yet on R 3.3.2

Thursday, March 9, 2017 4 emails

Henrik Bengtsson Bioconductor and R 3.3.3: Error in c(x, values) : could not find symbol "recursive" in environment of the generic function Hervé Pagès Bioconductor and R 3.3.3: Error in c(x, values) : could not find symbol "recursive" in environment of the generic function Henrik Bengtsson Bioconductor and R 3.3.3: Error in c(x, values) : could not find symbol "recursive" in environment of the generic function Kasper Daniel Hansen R long vectors not supported yet on R 3.3.2

Wednesday, March 8, 2017 4 emails

Sohaib Ghani R long vectors not supported yet on R 3.3.2 Leonardo Collado Torres badges for Bioconductor package Yu, Guangchuang badges for Bioconductor package Welliton Souza Writing examples for accessing web API

Tuesday, March 7, 2017 14 emails

Welliton Souza Writing examples for accessing web API Martin Morgan Writing examples for accessing web API Welliton Souza Writing examples for accessing web API Nan Xiao Writing examples for accessing web API Welliton Souza Writing examples for accessing web API Sean Davis Writing examples for accessing web API Welliton Souza Writing examples for accessing web API Rodriguez Martinez, Andrea build report with error Obenchain, Valerie build report with error Obenchain, Valerie devel builds: windows and mac Rodriguez Martinez, Andrea build report with error Obenchain, Valerie problems with master.bioconductor.org Obenchain, Valerie problems with master.bioconductor.org Malgorzata Nowicka GitHub mirror not synced for GenomicTuples

Sunday, March 5, 2017 4 emails

Martin Morgan 回复： question on bioconductor/package submission Martin Morgan question on bioconductor/package submission 张腾 question on bioconductor/package submission 张腾 question on bioconductor/package submission

Saturday, March 4, 2017 3 emails

Michael Lawrence question on bioconductor/package citation Martin Morgan question on bioconductor/package citation Dwivedi, Bhakti question on bioconductor/package citation

Friday, March 3, 2017 9 emails

Thursday, March 2, 2017 5 emails

James W. MacDonald problem installing 'Affycoretools' in linux ubuntu Aaron Lun any interest in a BiocMatrix core package? Wolfgang Huber any interest in a BiocMatrix core package? deepti anand problem installing 'Affycoretools' in linux ubuntu Estefania Mancini covr

Wednesday, March 1, 2017 1 email

Leonardo Collado Torres User has issue with importing a BigWig file with rtracklayer despite having a recent openssl and latest R packages

Bioc-devel March 2017