Bioc-devel November 2017

[Bioc-devel] a possible bug in development version of GenomicAlignments

1 msg Nov 30

O

Ou, Jianhong a possible bug in development version of GenomicAlignments Nov 30, 2017

[Bioc-devel] Data package timeouts

7 msgs Nov 30

M

Michael Love Data package timeouts Nov 29, 2017

M

Mike Smith Data package timeouts Nov 30, 2017

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Sean Davis Data package timeouts Nov 30, 2017

M

Mike Smith Data package timeouts Nov 30, 2017

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Martin Morgan Data package timeouts Nov 30, 2017

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Sean Davis Data package timeouts Nov 30, 2017

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Leonardo Collado Torres Data package timeouts Nov 30, 2017

[Bioc-devel] Build failing for MutationalPatterns

7 msgs Nov 30

J

Janssen-10, R.R.E. Build failing for MutationalPatterns Nov 29, 2017

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Martin Morgan Build failing for MutationalPatterns Nov 29, 2017

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Janssen-10, R.R.E. Build failing for MutationalPatterns Nov 29, 2017

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Martin Morgan Build failing for MutationalPatterns Nov 29, 2017

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Janssen-10, R.R.E. Build failing for MutationalPatterns Nov 30, 2017

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Sean Davis Build failing for MutationalPatterns Nov 30, 2017

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Martin Morgan Build failing for MutationalPatterns Nov 30, 2017

[Bioc-devel] Pandoc issues

4 msgs Nov 29

V

Vladimir Kiselev Pandoc issues Nov 28, 2017

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Hervé Pagès Pandoc issues Nov 28, 2017

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Vladimir Kiselev Pandoc issues Nov 28, 2017

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Hervé Pagès Pandoc issues Nov 29, 2017

[Bioc-devel] SummarizedExperiment: structure loss, when mixing matrix and data.frame data

5 msgs Nov 29

F

Felix Ernst SummarizedExperiment: structure loss, when mixing matrix and data.frame data Nov 26, 2017

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Vincent Carey SummarizedExperiment: structure loss, when mixing matrix and data.frame data Nov 26, 2017

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Martin Morgan SummarizedExperiment: structure loss, when mixing matrix and data.frame data Nov 26, 2017

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Hervé Pagès SummarizedExperiment: structure loss, when mixing matrix and data.frame data Nov 28, 2017

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Hervé Pagès SummarizedExperiment: structure loss, when mixing matrix and data.frame data Nov 29, 2017

[Bioc-devel] packages modifying 'library' during R CMD check

2 msgs Nov 29

O

Obenchain, Valerie packages modifying 'library' during R CMD check Nov 29, 2017

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Sean Davis packages modifying 'library' during R CMD check Nov 29, 2017

[Bioc-devel] updating and syncing existing package with Github

3 msgs Nov 28

M

Mehrnoush Malek updating and syncing existing package with Github Nov 28, 2017

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Obenchain, Valerie updating and syncing existing package with Github Nov 28, 2017

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Obenchain, Valerie updating and syncing existing package with Github Nov 28, 2017

[Bioc-devel] Question about external algorithms to Bioconductor package

14 msgs Nov 26

I

Ioannis Vardaxis Question about external algorithms to Bioconductor package Nov 12, 2017

R

Ryan Question about external algorithms to Bioconductor package Nov 12, 2017

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A.E.S. Question about external algorithms to Bioconductor package Nov 12, 2017

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Ioannis Vardaxis Question about external algorithms to Bioconductor package Nov 24, 2017

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Martin Morgan Question about external algorithms to Bioconductor package Nov 24, 2017

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Ioannis Vardaxis Question about external algorithms to Bioconductor package Nov 24, 2017

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Martin Morgan Question about external algorithms to Bioconductor package Nov 24, 2017

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Benilton Carvalho Question about external algorithms to Bioconductor package Nov 24, 2017

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Martin Morgan Question about external algorithms to Bioconductor package Nov 25, 2017

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Dario Strbenac Question about external algorithms to Bioconductor package Nov 25, 2017

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Wei Shi Question about external algorithms to Bioconductor package Nov 26, 2017

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Ioannis Vardaxis Question about external algorithms to Bioconductor package Nov 26, 2017

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Wei Shi Question about external algorithms to Bioconductor package Nov 26, 2017

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Ioannis Vardaxis Question about external algorithms to Bioconductor package Nov 26, 2017

[Bioc-devel] Using devel version of Bioconductor

2 msgs Nov 25

朱

朱莉娜 Using devel version of Bioconductor Nov 25, 2017

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Martin Morgan Using devel version of Bioconductor Nov 25, 2017

[Bioc-devel] XML package on tokay2

2 msgs Nov 25

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Vladislav Petyuk XML package on tokay2 Nov 24, 2017

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Obenchain, Valerie XML package on tokay2 Nov 25, 2017

[Bioc-devel] Coverage badge

2 msgs Nov 25

L

Lluís Revilla Coverage badge Nov 25, 2017

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Andrzej Oleś Coverage badge Nov 25, 2017

[Bioc-devel] Long-form documentation for DelayedArray?

2 msgs Nov 24

H

Hervé Pagès Long-form documentation for DelayedArray? Nov 22, 2017

P

Peter Hickey Long-form documentation for DelayedArray? Nov 24, 2017

[Bioc-devel] Update data in data package, pcxnData

2 msgs Nov 24

S

Sokratis Kariotis Update data in data package, pcxnData Nov 24, 2017

S

Shepherd, Lori Update data in data package, pcxnData Nov 24, 2017

[Bioc-devel] BiocParallel on macosx: socketConnection failures with MulticoreParam

3 msgs Nov 22

V

Vincent Carey BiocParallel on macosx: socketConnection failures with MulticoreParam Nov 22, 2017

M

Martin Morgan BiocParallel on macosx: socketConnection failures with MulticoreParam Nov 22, 2017

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Vincent Carey BiocParallel on macosx: socketConnection failures with MulticoreParam Nov 22, 2017

[Bioc-devel] Do we have an unpacked archive for BioC, so that we can URL link to individual files ?

9 msgs Nov 22

N

Neumann, Steffen Do we have an unpacked archive for BioC, so that we can URL link to individual files ? Nov 17, 2017

M

Martin Morgan Do we have an unpacked archive for BioC, so that we can URL link to individual files ? Nov 17, 2017

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Neumann, Steffen Do we have an unpacked archive for BioC, so that we can URL link to individual files ? Nov 19, 2017

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Martin Morgan Do we have an unpacked archive for BioC, so that we can URL link to individual files ? Nov 20, 2017

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Robert M. Flight Do we have an unpacked archive for BioC, so that we can URL link to individual files ? Nov 20, 2017

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Robert M. Flight Do we have an unpacked archive for BioC, so that we can URL link to individual files ? Nov 20, 2017

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Martin Morgan Do we have an unpacked archive for BioC, so that we can URL link to individual files ? Nov 20, 2017

R

Robert M. Flight Do we have an unpacked archive for BioC, so that we can URL link to individual files ? Nov 20, 2017

N

Neumann, Steffen Do we have an unpacked archive for BioC, so that we can URL link to individual files ? Nov 22, 2017

[Bioc-devel] DaMiRseq in ERROR in the stable release

5 msgs Nov 22

M

Mattia Chiesa DaMiRseq in ERROR in the stable release Nov 20, 2017

S

Shepherd, Lori DaMiRseq in ERROR in the stable release Nov 20, 2017

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Martin Morgan DaMiRseq in ERROR in the stable release Nov 20, 2017

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Mattia Chiesa R: DaMiRseq in ERROR in the stable release Nov 22, 2017

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Martin Morgan R: DaMiRseq in ERROR in the stable release Nov 22, 2017

[Bioc-devel] List of Deprecated Packages for Bioc3.8

2 msgs Nov 22

S

Shepherd, Lori List of Deprecated Packages for Bioc3.8 Nov 22, 2017

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Shepherd, Lori List of Deprecated Packages for Bioc3.8 Nov 22, 2017

[Bioc-devel] Fw: object 'Ccoxph_wtest' not found

1 msg Nov 20

Q

Qian Liu object 'Ccoxph_wtest' not found Nov 20, 2017

[Bioc-devel] Emails to package maintainer bouncing back - what to do?

2 msgs Nov 19

A

Aditya Bhagwat Emails to package maintainer bouncing back - what to do? Nov 18, 2017

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Dario Strbenac Emails to package maintainer bouncing back - what to do? Nov 19, 2017

[Bioc-devel] Bioconductor build reports as a tidy data frame

3 msgs Nov 17

S

Sean Davis Bioconductor build reports as a tidy data frame Nov 17, 2017

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Hervé Pagès Bioconductor build reports as a tidy data frame Nov 17, 2017

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Sean Davis Bioconductor build reports as a tidy data frame Nov 17, 2017

[Bioc-devel] OrgDb in AnnotationHub

2 msgs Nov 17

S

Shepherd, Lori OrgDb in AnnotationHub Nov 16, 2017

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Shepherd, Lori OrgDb in AnnotationHub Nov 17, 2017

[Bioc-devel] annotation data not updated?

8 msgs Nov 17

Y

Yu, Guangchuang annotation data not updated? Nov 2, 2017

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Obenchain, Valerie annotation data not updated? Nov 2, 2017

V

Van Twisk, Daniel annotation data not updated? Nov 9, 2017

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Van Twisk, Daniel annotation data not updated? Nov 9, 2017

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James W. MacDonald annotation data not updated? Nov 14, 2017

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Shepherd, Lori annotation data not updated? Nov 15, 2017

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James W. MacDonald annotation data not updated? Nov 15, 2017

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Shepherd, Lori annotation data not updated? Nov 17, 2017

[Bioc-devel] Git access

5 msgs Nov 17

F

Fatemehsadat Seyednasrollah Git access Nov 17, 2017

F

Fatemehsadat Seyednasrollah Git access Nov 17, 2017

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Turaga, Nitesh Git access Nov 17, 2017

F

Fatemehsadat Seyednasrollah Git access Nov 17, 2017

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Turaga, Nitesh Git access Nov 17, 2017

[Bioc-devel] Query bioconductor.org for what the current release version is?

3 msgs Nov 16

H

Henrik Bengtsson Query bioconductor.org for what the current release version is? Nov 16, 2017

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Turaga, Nitesh Query bioconductor.org for what the current release version is? Nov 16, 2017

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Henrik Bengtsson Query bioconductor.org for what the current release version is? Nov 16, 2017

[Bioc-devel] NEWS file hasn't been updated in the devel branch of package cbaf

7 msgs Nov 16

A

Arman Shahrisa NEWS file hasn't been updated in the devel branch of package cbaf Nov 15, 2017

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Hervé Pagès NEWS file hasn't been updated in the devel branch of package cbaf Nov 16, 2017

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Arman Shahrisa NEWS file hasn't been updated in the devel branch of package cbaf Nov 16, 2017

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Hervé Pagès NEWS file hasn't been updated in the devel branch of package cbaf Nov 16, 2017

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Arman Shahrisa NEWS file hasn't been updated in the devel branch of package cbaf Nov 16, 2017

H

Hervé Pagès NEWS file hasn't been updated in the devel branch of package cbaf Nov 16, 2017

A

A.E.S. NEWS file hasn't been updated in the devel branch of package cbaf Nov 16, 2017

[Bioc-devel] batchtools support in BiocParallel

2 msgs Nov 16

S

Steve Lianoglou batchtools support in BiocParallel Nov 16, 2017

M

Martin Morgan batchtools support in BiocParallel Nov 16, 2017

[Bioc-devel] Pandoc on Build Computers

2 msgs Nov 15

D

Dario Strbenac Pandoc on Build Computers Nov 14, 2017

A

Andrzej Oleś Pandoc on Build Computers Nov 15, 2017

[Bioc-devel] Issues with access to Bioconductor repository: multiClust

2 msgs Nov 14

N

Nathan Lawlor Issues with access to Bioconductor repository: multiClust Nov 14, 2017

T

Turaga, Nitesh Issues with access to Bioconductor repository: multiClust Nov 14, 2017

[Bioc-devel] Single Package Builder / Package Submission

2 msgs Nov 14

S

Shepherd, Lori Single Package Builder / Package Submission Nov 14, 2017

S

Shepherd, Lori Single Package Builder / Package Submission Nov 14, 2017

[Bioc-devel] How much does it takes for a package to appear at Bioconductor.org after a push?

5 msgs Nov 14

A

Arman Shahrisa How much does it takes for a package to appear at Bioconductor.org after a push? Nov 13, 2017

A

Arman Shahrisa How much does it takes for a package to appear at Bioconductor.org after a push? Nov 13, 2017

M

Martin Morgan How much does it takes for a package to appear at Bioconductor.org after a push? Nov 13, 2017

A

Arman Shahrisa How much does it takes for a package to appear at Bioconductor.org after a push? Nov 13, 2017

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Shepherd, Lori How much does it takes for a package to appear at Bioconductor.org after a push? Nov 14, 2017

[Bioc-devel] inconsistent metadata when deleting a column from a DataFrame

2 msgs Nov 13

A

Alejandro Reyes inconsistent metadata when deleting a column from a DataFrame Nov 12, 2017

M

Michael Lawrence inconsistent metadata when deleting a column from a DataFrame Nov 13, 2017

[Bioc-devel] Build error on windows (devel)

2 msgs Nov 10

N

Nicholas Clark Build error on windows (devel) Nov 10, 2017

M

Martin Morgan Build error on windows (devel) Nov 10, 2017

[Bioc-devel] object 'Ccoxph_wtest' not found

1 msg Nov 10

A

Abdulbaki object 'Ccoxph_wtest' not found Nov 10, 2017

[Bioc-devel] GitHub Repo for reporting issues with Bioconductor.org Website

1 msg Nov 10

S

Shepherd, Lori GitHub Repo for reporting issues with Bioconductor.org Website Nov 10, 2017

[Bioc-devel] write access to git repos for two packages maintained

2 msgs Nov 10

A

Alicia Schep write access to git repos for two packages maintained Nov 9, 2017

M

Martin Morgan write access to git repos for two packages maintained Nov 10, 2017

[Bioc-devel] website

1 msg Nov 9

S

Shepherd, Lori website Nov 9, 2017

[Bioc-devel] EXTERNAL: Re: Rnits Bioconductor package

2 msgs Nov 8

T

Turaga, Nitesh EXTERNAL: Re: Rnits Bioconductor package Nov 8, 2017

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Dipen Sangurdekar EXTERNAL: Re: Rnits Bioconductor package Nov 8, 2017

[Bioc-devel] switching to git

2 msgs Nov 7

P

Peter Haverty switching to git Nov 7, 2017

T

Turaga, Nitesh switching to git Nov 7, 2017

[Bioc-devel] "Long tests" builds

2 msgs Nov 7

H

Hervé Pagès "Long tests" builds Nov 7, 2017

H

Hervé Pagès "Long tests" builds Nov 7, 2017

[Bioc-devel] RStan/ StanCon - maybe of interest

1 msg Nov 6

A

Aedin Culhane RStan/ StanCon - maybe of interest Nov 6, 2017

[Bioc-devel] Dependency problems for package CEMiTool

2 msgs Nov 6

P

Pedro Russo Dependency problems for package CEMiTool Nov 6, 2017

S

Shepherd, Lori Dependency problems for package CEMiTool Nov 6, 2017

[Bioc-devel] any interest in a BiocMatrix core package?

15 msgs Nov 4

B

Bemis, Kylie any interest in a BiocMatrix core package? Nov 1, 2017

K

Kasper Daniel Hansen any interest in a BiocMatrix core package? Nov 1, 2017

P

Peter Hickey any interest in a BiocMatrix core package? Nov 1, 2017

H

Hervé Pagès any interest in a BiocMatrix core package? Nov 1, 2017

M

Michael Lawrence any interest in a BiocMatrix core package? Nov 1, 2017

B

Bemis, Kylie any interest in a BiocMatrix core package? Nov 1, 2017

D

Douglas Bates any interest in a BiocMatrix core package? Nov 1, 2017

M

Martin Morgan any interest in a BiocMatrix core package? Nov 1, 2017

M

Martin Maechler any interest in a BiocMatrix core package? Nov 2, 2017

M

Martin Morgan any interest in a BiocMatrix core package? Nov 2, 2017

M

Martin Maechler any interest in a BiocMatrix core package? Nov 2, 2017

M

Michael Lawrence any interest in a BiocMatrix core package? Nov 2, 2017

P

Peter Hickey any interest in a BiocMatrix core package? Nov 2, 2017

M

Martin Morgan any interest in a BiocMatrix core package? Nov 3, 2017

H

Henrik Bengtsson any interest in a BiocMatrix core package? Nov 4, 2017

[Bioc-devel] Accepted packages can't find each other and fail build

6 msgs Nov 3

S

Sokratis Kariotis Accepted packages can't find each other and fail build Nov 1, 2017

H

Hervé Pagès Accepted packages can't find each other and fail build Nov 1, 2017

H

Hervé Pagès Accepted packages can't find each other and fail build Nov 1, 2017

S

Sokratis Kariotis Accepted packages can't find each other and fail build Nov 3, 2017

S

Shepherd, Lori Accepted packages can't find each other and fail build Nov 3, 2017

S

Sokratis Kariotis Accepted packages can't find each other and fail build Nov 3, 2017

[Bioc-devel] Dockers have been updated for Release and Devel

1 msg Nov 3

S

Shepherd, Lori Dockers have been updated for Release and Devel Nov 3, 2017

[Bioc-devel] Confusion with how to maintain release/devel files on local computer.

15 msgs Nov 3

A

Arman Shahrisa Confusion with how to maintain release/devel files on local computer. Nov 1, 2017

G

Gabriel Becker Confusion with how to maintain release/devel files on local computer. Nov 1, 2017

M

Martin Morgan Confusion with how to maintain release/devel files on local computer. Nov 1, 2017

L

Laurent Gatto Confusion with how to maintain release/devel files on local computer. Nov 1, 2017

S

Stephanie M. Gogarten Confusion with how to maintain release/devel files on local computer. Nov 1, 2017

A

Arman Shahrisa Confusion with how to maintain release/devel files on local computer. Nov 1, 2017

A

Arman Shahrisa Confusion with how to maintain release/devel files on local computer. Nov 1, 2017

V

Vincent Carey Confusion with how to maintain release/devel files on local computer. Nov 1, 2017

M

Martin Morgan Confusion with how to maintain release/devel files on local computer. Nov 1, 2017

M

Martin Morgan Confusion with how to maintain release/devel files on local computer. Nov 1, 2017

A

Arman Shahrisa Confusion with how to maintain release/devel files on local computer. Nov 2, 2017

M

Martin Morgan Confusion with how to maintain release/devel files on local computer. Nov 2, 2017

A

Arman Shahrisa Confusion with how to maintain release/devel files on local computer. Nov 2, 2017

M

Martin Morgan Confusion with how to maintain release/devel files on local computer. Nov 3, 2017

A

Arman Shahrisa Confusion with how to maintain release/devel files on local computer. Nov 3, 2017

[Bioc-devel] Package update not showing on Bioc 3.6 webpage

6 msgs Nov 3

K

kushal kumar dey Package update not showing on Bioc 3.6 webpage Nov 1, 2017

T

Turaga, Nitesh Package update not showing on Bioc 3.6 webpage Nov 1, 2017

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Turaga, Nitesh Package update not showing on Bioc 3.6 webpage Nov 1, 2017

K

kushal kumar dey Package update not showing on Bioc 3.6 webpage Nov 1, 2017

K

kushal kumar dey Package update not showing on Bioc 3.6 webpage Nov 2, 2017

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Shepherd, Lori Package update not showing on Bioc 3.6 webpage Nov 3, 2017

[Bioc-devel] Bioconductor Package Archives

2 msgs Nov 2

O

Obenchain, Valerie Bioconductor Package Archives Nov 2, 2017

O

Obenchain, Valerie Bioconductor Package Archives Nov 2, 2017

[Bioc-devel] Git Problems and Dependence not available

2 msgs Nov 2

Y

Yuan Tian Git Problems and Dependence not available Nov 1, 2017

S

Shepherd, Lori Git Problems and Dependence not available Nov 2, 2017

[Bioc-devel] Is version 1.1.0 correct for a new released package?

5 msgs Nov 2

A

Arman Shahrisa Is version 1.1.0 correct for a new released package? Nov 1, 2017

S

Shepherd, Lori Is version 1.1.0 correct for a new released package? Nov 1, 2017

H

Hervé Pagès Is version 1.1.0 correct for a new released package? Nov 1, 2017

A

Arman Shahrisa Is version 1.1.0 correct for a new released package? Nov 1, 2017

S

Shepherd, Lori Is version 1.1.0 correct for a new released package? Nov 2, 2017

[Bioc-devel] Package additional maintainers

2 msgs Nov 2

F

Fatemehsadat Seyednasrollah Package additional maintainers Nov 2, 2017

M

Martin Morgan Package additional maintainers Nov 2, 2017

[Bioc-devel] Branching BioC 3.7 annotations

1 msg Nov 1

O

Obenchain, Valerie Branching BioC 3.7 annotations Nov 1, 2017

[Bioc-devel] package access GitHub

2 msgs Nov 1

V

Valeriia Sherina package access GitHub Nov 1, 2017

T

Turaga, Nitesh package access GitHub Nov 1, 2017

[Bioc-devel] BioC 3.7 devel builds

1 msg Nov 1

O

Obenchain, Valerie BioC 3.7 devel builds Nov 1, 2017

[Bioc-devel] Vignette rebuild for MutationalPatterns

2 msgs Nov 1

J

Janssen-10, R.R.E. Vignette rebuild for MutationalPatterns Nov 1, 2017

L

Ludwig Geistlinger Vignette rebuild for MutationalPatterns Nov 1, 2017

[Bioc-devel] Can't reproduce build error from OS X server for pwOmics package

2 msgs Nov 1

S

Sitte, Maren Can't reproduce build error from OS X server for pwOmics package Nov 1, 2017

H

Hervé Pagès Can't reproduce build error from OS X server for pwOmics package Nov 1, 2017

[Bioc-devel] I can't merge the changes by bioc team with my accepted package

1 msg Nov 1

T

Turaga, Nitesh I can't merge the changes by bioc team with my accepted package Nov 1, 2017

[Bioc-devel] I can't merge the changes by bioc team with my accepted package

1 msg Nov 1

S

Shepherd, Lori I can't merge the changes by bioc team with my accepted package Nov 1, 2017

[Bioc-devel] Bioconductor 3.6 is released

1 msg Oct 31

O

Obenchain, Valerie Bioconductor 3.6 is released Oct 31, 2017