Bioc-devel September 2019

[Bioc-devel] Querying web resources slow in Windows

2 msgs Sep 30

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Alberto Valdeolivas Querying web resources slow in Windows Sep 30, 2019

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Richard Virgen-Slane Querying web resources slow in Windows Sep 30, 2019

[Bioc-devel] Large file problem in git

3 msgs Sep 30

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Cuklina Jelena Large file problem in git Sep 30, 2019

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Hervé Pagès Large file problem in git Sep 30, 2019

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Turaga, Nitesh Large file problem in git Sep 30, 2019

[Bioc-devel] pwrEWAS - checkResults error

3 msgs Sep 30

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Graw, Stefan H pwrEWAS - checkResults error Sep 30, 2019

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Shepherd, Lori pwrEWAS - checkResults error Sep 30, 2019

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Graw, Stefan H pwrEWAS - checkResults error Sep 30, 2019

[Bioc-devel] Deadline for commits to current Release 3.9 Branch and Devel 3.10

1 msg Sep 30

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Shepherd, Lori Deadline for commits to current Release 3.9 Branch and Devel 3.10 Sep 30, 2019

[Bioc-devel] Reference manual as HTML

11 msgs Sep 26

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Ludwig Geistlinger Reference manual as HTML Sep 25, 2019

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Laurent Gatto Reference manual as HTML Sep 25, 2019

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Martin Morgan Reference manual as HTML Sep 25, 2019

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Stuart Lee Reference manual as HTML Sep 25, 2019

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Henrik Bengtsson Reference manual as HTML Sep 25, 2019

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Martin Morgan Reference manual as HTML Sep 25, 2019

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Laurent Gatto Reference manual as HTML Sep 26, 2019

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Martin Maechler Reference manual as HTML Sep 26, 2019

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Hervé Pagès Reference manual as HTML Sep 26, 2019

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Laurent Gatto Reference manual as HTML Sep 26, 2019

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Hervé Pagès Reference manual as HTML Sep 26, 2019

[Bioc-devel] ndexr fails on vignette build on windows

1 msg Sep 26

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Florian J. Auer ndexr fails on vignette build on windows Sep 26, 2019

[Bioc-devel] Error building Vignnette in Bioconductor Windows server when Submitting a new package

2 msgs Sep 25

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Alberto Valdeolivas Error building Vignnette in Bioconductor Windows server when Submitting a new package Sep 25, 2019

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Martin Morgan Error building Vignnette in Bioconductor Windows server when Submitting a new package Sep 25, 2019

[Bioc-devel] Push not triggering new builds neither updating package

2 msgs Sep 19

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Tiago Lubiana Alves Push not triggering new builds neither updating package Sep 19, 2019

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Shepherd, Lori Push not triggering new builds neither updating package Sep 19, 2019

[Bioc-devel] Bioc_since shield broken for packages accepted <6 months ago

3 msgs Sep 19

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Ahmed Mohamed Bioc_since shield broken for packages accepted <6 months ago Sep 18, 2019

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Shepherd, Lori Bioc_since shield broken for packages accepted <6 months ago Sep 19, 2019

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Shepherd, Lori Bioc_since shield broken for packages accepted <6 months ago Sep 19, 2019

[Bioc-devel] Organizing committee for BioC2020

1 msg Sep 18

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Aedin Culhane Organizing committee for BioC2020 Sep 18, 2019

[Bioc-devel] read_bed()

22 msgs Sep 18

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Bhagwat, Aditya read_bed() Sep 17, 2019

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Shepherd, Lori read_bed() Sep 17, 2019

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Bhagwat, Aditya read_bed() Sep 17, 2019

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Bhagwat, Aditya read_bed() Sep 17, 2019

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Michael Lawrence read_bed() Sep 17, 2019

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Bhagwat, Aditya read_bed() Sep 17, 2019

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Michael Lawrence read_bed() Sep 17, 2019

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Bhagwat, Aditya read_bed() Sep 17, 2019

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Michael Lawrence read_bed() Sep 17, 2019

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Bhagwat, Aditya read_bed() Sep 17, 2019

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Michael Lawrence read_bed() Sep 17, 2019

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Bhagwat, Aditya read_bed() Sep 17, 2019

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Bhagwat, Aditya read_bed() Sep 17, 2019

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Michael Lawrence read_bed() Sep 17, 2019

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Bhagwat, Aditya read_bed() Sep 17, 2019

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Bhagwat, Aditya read_bed() Sep 18, 2019

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Bhagwat, Aditya read_bed() Sep 18, 2019

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Bhagwat, Aditya read_bed() Sep 18, 2019

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Michael Lawrence read_bed() Sep 18, 2019

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Bhagwat, Aditya read_bed() Sep 18, 2019

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Bhagwat, Aditya read_bed() Sep 18, 2019

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Michael Lawrence read_bed() Sep 18, 2019

[Bioc-devel] Is biocLite() working for you right now? Could be a problem on our side. Issue with DelayedArray install with a PC on R 3.5.0

1 msg Sep 17

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Leonardo Collado Torres Is biocLite() working for you right now? Could be a problem on our side. Issue with DelayedArray install with a PC on R 3.5.0 Sep 17, 2019

[Bioc-devel] Fwd: TissueEnrich problems reported in the Multiple platform build/check report for BioC 3.9

4 msgs Sep 17

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Ashish Jain TissueEnrich problems reported in the Multiple platform build/check report for BioC 3.9 Sep 16, 2019

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Shepherd, Lori TissueEnrich problems reported in the Multiple platform build/check report for BioC 3.9 Sep 17, 2019

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Ashish Jain TissueEnrich problems reported in the Multiple platform build/check report for BioC 3.9 Sep 17, 2019

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Hervé Pagès TissueEnrich problems reported in the Multiple platform build/check report for BioC 3.9 Sep 17, 2019

[Bioc-devel] R environment variable which indicates "running in the bioc build system"?

7 msgs Sep 17

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Paul Shannon R environment variable which indicates "running in the bioc build system"? Sep 12, 2019

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Hervé Pagès R environment variable which indicates "running in the bioc build system"? Sep 12, 2019

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Paul Shannon R environment variable which indicates "running in the bioc build system"? Sep 12, 2019

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Hervé Pagès R environment variable which indicates "running in the bioc build system"? Sep 12, 2019

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Paul Shannon R environment variable which indicates "running in the bioc build system"? Sep 15, 2019

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Paul Shannon which web browser on the linux build machines? was Re: R environment variable which indicates "running in the bioc build system"? Sep 17, 2019

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Hervé Pagès which web browser on the linux build machines? was Re: R environment variable which indicates "running in the bioc build system"? Sep 17, 2019

[Bioc-devel] Failing to build vignette because of problems with ImageMagick

8 msgs Sep 17

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Christian Mertes Failing to build vignette because of problems with ImageMagick Sep 9, 2019

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Kasper Daniel Hansen Failing to build vignette because of problems with ImageMagick Sep 9, 2019

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Christian Mertes Failing to build vignette because of problems with ImageMagick Sep 10, 2019

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Vincent Carey Failing to build vignette because of problems with ImageMagick Sep 11, 2019

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Hervé Pagès Failing to build vignette because of problems with ImageMagick Sep 11, 2019

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Kasper Daniel Hansen Failing to build vignette because of problems with ImageMagick Sep 11, 2019

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Hervé Pagès Failing to build vignette because of problems with ImageMagick Sep 11, 2019

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Christian Mertes Failing to build vignette because of problems with ImageMagick Sep 17, 2019

[Bioc-devel] read.table fails with https protocol

1 msg Sep 17

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Christian Mertes read.table fails with https protocol Sep 17, 2019

[Bioc-devel] Extending GenomicRanges::`intra-range-methods`

8 msgs Sep 17

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Bhagwat, Aditya Extending GenomicRanges::`intra-range-methods` Sep 13, 2019

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Michael Lawrence Extending GenomicRanges::`intra-range-methods` Sep 13, 2019

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Bhagwat, Aditya Extending GenomicRanges::`intra-range-methods` Sep 16, 2019

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Bhagwat, Aditya Extending GenomicRanges::`intra-range-methods` Sep 16, 2019

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Bhagwat, Aditya Extending GenomicRanges::`intra-range-methods` Sep 16, 2019

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Michael Lawrence Extending GenomicRanges::`intra-range-methods` Sep 16, 2019

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Stuart Lee Extending GenomicRanges::`intra-range-methods` Sep 16, 2019

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Bhagwat, Aditya Extending GenomicRanges::`intra-range-methods` Sep 17, 2019

[Bioc-devel] Error in HDF5 - Package submission - Not detected locally

5 msgs Sep 16

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Tiago Lubiana Alves Error in HDF5 - Package submission - Not detected locally Sep 14, 2019

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Mike Smith Error in HDF5 - Package submission - Not detected locally Sep 16, 2019

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Tiago Lubiana Alves Error in HDF5 - Package submission - Not detected locally Sep 16, 2019

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Peter Hickey Error in HDF5 - Package submission - Not detected locally Sep 16, 2019

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Hervé Pagès Error in HDF5 - Package submission - Not detected locally Sep 16, 2019

[Bioc-devel] New Package Submission Deadline for Bioc Release 3.10

1 msg Sep 16

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Shepherd, Lori New Package Submission Deadline for Bioc Release 3.10 Sep 16, 2019

[Bioc-devel] Bioconductor 3.10 release schedule

1 msg Sep 16

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Shepherd, Lori Bioconductor 3.10 release schedule Sep 16, 2019

[Bioc-devel] new package for accessing some chemical and biological databases

2 msgs Sep 13

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Hervé Pagès new package for accessing some chemical and biological databases Sep 13, 2019

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Pierrick Roger new package for accessing some chemical and biological databases Sep 13, 2019

[Bioc-devel] Duplicated method names in purrr and GenomicRanges

8 msgs Sep 13

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bioi@i m@iii@g oii posteo@de Duplicated method names in purrr and GenomicRanges Sep 12, 2019

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O'CALLAGHAN Alan Duplicated method names in purrr and GenomicRanges Sep 12, 2019

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Michael Lawrence Duplicated method names in purrr and GenomicRanges Sep 12, 2019

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Liu, Qian Duplicated method names in purrr and GenomicRanges Sep 12, 2019

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Richard Virgen-Slane Duplicated method names in purrr and GenomicRanges Sep 12, 2019

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Cook, Malcolm Duplicated method names in purrr and GenomicRanges Sep 12, 2019

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bioi@i m@iii@g oii posteo@de Duplicated method names in purrr and GenomicRanges Sep 13, 2019

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Henrik Bengtsson Duplicated method names in purrr and GenomicRanges Sep 13, 2019

[Bioc-devel] new package for accessing some chemical and biological databases

3 msgs Sep 13

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Martin Morgan new package for accessing some chemical and biological databases Sep 13, 2019

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Kasper Daniel Hansen new package for accessing some chemical and biological databases Sep 13, 2019

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Mike Smith new package for accessing some chemical and biological databases Sep 13, 2019

[Bioc-devel] Experiment package does not appear in build report

2 msgs Sep 13

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Éric Fournier Experiment package does not appear in build report Sep 13, 2019

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Shepherd, Lori Experiment package does not appear in build report Sep 13, 2019

[Bioc-devel] DMRcate_2.0.0 and updated DMRcatedata

4 msgs Sep 13

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Tim Peters DMRcate_2.0.0 and updated DMRcatedata Sep 12, 2019

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Turaga, Nitesh DMRcate_2.0.0 and updated DMRcatedata Sep 12, 2019

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Tim Peters DMRcate_2.0.0 and updated DMRcatedata Sep 12, 2019

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Shepherd, Lori DMRcate_2.0.0 and updated DMRcatedata Sep 13, 2019

[Bioc-devel] Problems with converting GPos to GRanges.

2 msgs Sep 13

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Charles Plessy Problems with converting GPos to GRanges. Sep 12, 2019

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Hervé Pagès Problems with converting GPos to GRanges. Sep 13, 2019

[Bioc-devel] Change package name

2 msgs Sep 12

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Lulu Chen Change package name Sep 10, 2019

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Shepherd, Lori Change package name Sep 12, 2019

[Bioc-devel] Import BSgenome class without attaching BiocGenerics (and others)?

25 msgs Sep 12

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Bhagwat, Aditya Import BSgenome class without attaching BiocGenerics (and others)? Sep 6, 2019

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Michael Lawrence Import BSgenome class without attaching BiocGenerics (and others)? Sep 6, 2019

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Bhagwat, Aditya Import BSgenome class without attaching BiocGenerics (and others)? Sep 6, 2019

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Bhagwat, Aditya Import BSgenome class without attaching BiocGenerics (and others)? Sep 6, 2019

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Michael Lawrence Import BSgenome class without attaching BiocGenerics (and others)? Sep 6, 2019

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Kasper Daniel Hansen Import BSgenome class without attaching BiocGenerics (and others)? Sep 6, 2019

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Bhagwat, Aditya Import BSgenome class without attaching BiocGenerics (and others)? Sep 6, 2019

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Michael Lawrence Import BSgenome class without attaching BiocGenerics (and others)? Sep 6, 2019

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Bhagwat, Aditya Import BSgenome class without attaching BiocGenerics (and others)? Sep 6, 2019

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Hervé Pagès Import BSgenome class without attaching BiocGenerics (and others)? Sep 10, 2019

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Bhagwat, Aditya Import BSgenome class without attaching BiocGenerics (and others)? Sep 11, 2019

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Hervé Pagès Import BSgenome class without attaching BiocGenerics (and others)? Sep 11, 2019

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Bhagwat, Aditya Import BSgenome class without attaching BiocGenerics (and others)? Sep 11, 2019

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Michael Lawrence Import BSgenome class without attaching BiocGenerics (and others)? Sep 11, 2019

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Bhagwat, Aditya Import BSgenome class without attaching BiocGenerics (and others)? Sep 11, 2019

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Michael Lawrence Import BSgenome class without attaching BiocGenerics (and others)? Sep 11, 2019

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Hervé Pagès Import BSgenome class without attaching BiocGenerics (and others)? Sep 11, 2019

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Hervé Pagès Import BSgenome class without attaching BiocGenerics (and others)? Sep 11, 2019

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Michael Lawrence Import BSgenome class without attaching BiocGenerics (and others)? Sep 11, 2019

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Bernat Gel Import BSgenome class without attaching BiocGenerics (and others)? Sep 11, 2019

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Bernat Gel Import BSgenome class without attaching BiocGenerics (and others)? Sep 12, 2019

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Bhagwat, Aditya Import BSgenome class without attaching BiocGenerics (and others)? Sep 12, 2019

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Bernat Gel Import BSgenome class without attaching BiocGenerics (and others)? Sep 12, 2019

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Bhagwat, Aditya Import BSgenome class without attaching BiocGenerics (and others)? Sep 12, 2019

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Bhagwat, Aditya Import BSgenome class without attaching BiocGenerics (and others)? Sep 12, 2019

[Bioc-devel] Troubles with Windows build

3 msgs Sep 12

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Ulrich Bodenhofer Troubles with Windows build Sep 11, 2019

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Hervé Pagès Troubles with Windows build Sep 11, 2019

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Ulrich Bodenhofer Troubles with Windows build Sep 12, 2019

[Bioc-devel] Bioconductor Developers Forum - Thursday 19th September

1 msg Sep 11

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Mike Smith Bioconductor Developers Forum - Thursday 19th September Sep 11, 2019

[Bioc-devel] RGL warning

4 msgs Sep 11

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Zhezhen Wang RGL warning Sep 10, 2019

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Kasper Daniel Hansen RGL warning Sep 11, 2019

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Zhezhen Wang RGL warning Sep 11, 2019

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Shepherd, Lori RGL warning Sep 11, 2019

[Bioc-devel] Collapsing a GRangesList into a GRanges without loosing names(GRangesList)

3 msgs Sep 11

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Bhagwat, Aditya Collapsing a GRangesList into a GRanges without loosing names(GRangesList) Sep 11, 2019

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Shepherd, Lori Collapsing a GRangesList into a GRanges without loosing names(GRangesList) Sep 11, 2019

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Bhagwat, Aditya Collapsing a GRangesList into a GRanges without loosing names(GRangesList) Sep 11, 2019

[Bioc-devel] new package for accessing some chemical and biological databases

2 msgs Sep 11

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Pierrick Roger new package for accessing some chemical and biological databases Sep 11, 2019

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Shepherd, Lori new package for accessing some chemical and biological databases Sep 11, 2019

[Bioc-devel] Reset to a previous commit

1 msg Sep 11

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Simon Dirmeier Reset to a previous commit Sep 11, 2019

[Bioc-devel] Error in .get_entry_index(name, stop_if_missing)

1 msg Sep 10

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Zhezhen Wang Error in .get_entry_index(name, stop_if_missing) Sep 10, 2019

[Bioc-devel] Build error due to TensorFlow installation

14 msgs Sep 10

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Simon Dirmeier Build error due to TensorFlow installation Sep 2, 2019

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Shepherd, Lori Build error due to TensorFlow installation Sep 3, 2019

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Simon Dirmeier Build error due to TensorFlow installation Sep 3, 2019

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Hervé Pagès Build error due to TensorFlow installation Sep 4, 2019

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Dirmeier Simon Build error due to TensorFlow installation Sep 5, 2019

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Simon Dirmeier Build error due to TensorFlow installation Sep 5, 2019

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Kasper Daniel Hansen Build error due to TensorFlow installation Sep 5, 2019

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Martin Morgan Build error due to TensorFlow installation Sep 5, 2019

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Vincent Carey Build error due to TensorFlow installation Sep 5, 2019

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Simon Dirmeier Reset to a previous commit Sep 10, 2019

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Neumann, Steffen Reset to a previous commit Sep 10, 2019

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Simon Dirmeier Reset to a previous commit Sep 10, 2019

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Turaga, Nitesh Reset to a previous commit Sep 10, 2019

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Turaga, Nitesh Reset to a previous commit Sep 10, 2019

[Bioc-devel] Fwd: Update InterMineR maintainer

1 msg Sep 10

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Turaga, Nitesh Update InterMineR maintainer Sep 10, 2019

[Bioc-devel] Fwd: Update InterMineR maintainer

1 msg Sep 10

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Turaga, Nitesh Update InterMineR maintainer Sep 10, 2019

[Bioc-devel] List of Deprecated Packages Bioc 3.10

1 msg Sep 6

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Shepherd, Lori List of Deprecated Packages Bioc 3.10 Sep 6, 2019

[Bioc-devel] Version number error

8 msgs Sep 5

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Christopher John Version number error Sep 4, 2019

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Shepherd, Lori Version number error Sep 4, 2019

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Shepherd, Lori Version number error Sep 4, 2019

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Turaga, Nitesh Version number error Sep 4, 2019

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Christopher John Version number error Sep 4, 2019

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Martin Morgan Version number error Sep 5, 2019

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Christopher John Version number error Sep 5, 2019

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Martin Morgan Version number error Sep 5, 2019

[Bioc-devel] 'tokay1' error but passed other OS

10 msgs Sep 4

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Venu Thatikonda 'tokay1' error but passed other OS Sep 4, 2019

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Kasper Daniel Hansen 'tokay1' error but passed other OS Sep 4, 2019

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Shepherd, Lori 'tokay1' error but passed other OS Sep 4, 2019

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Hervé Pagès 'tokay1' error but passed other OS Sep 4, 2019

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Kasper Daniel Hansen 'tokay1' error but passed other OS Sep 4, 2019

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Venu Thatikonda 'tokay1' error but passed other OS Sep 4, 2019

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Shepherd, Lori 'tokay1' error but passed other OS Sep 4, 2019

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Kasper Daniel Hansen 'tokay1' error but passed other OS Sep 4, 2019

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Venu Thatikonda 'tokay1' error but passed other OS Sep 4, 2019

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Hervé Pagès 'tokay1' error but passed other OS Sep 4, 2019

[Bioc-devel] Fwd: Version number update problem

1 msg Sep 4

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Christopher John Version number update problem Sep 4, 2019

[Bioc-devel] EXTERNAL: MultiAssayExperiment silently converting RangedSummarizedExperiments into SummarizedExperiments.

2 msgs Sep 4

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Marcel Ramos EXTERNAL: MultiAssayExperiment silently converting RangedSummarizedExperiments into SummarizedExperiments. Sep 3, 2019

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Hervé Pagès EXTERNAL: MultiAssayExperiment silently converting RangedSummarizedExperiments into SummarizedExperiments. Sep 4, 2019