[Bioc-devel] question about citation file

2016-01-29 Thread Samuel E Zimmerman 
Hi Everyone,

I just uploaded a new version of my package "pathVar" to the development branch 
of bioconductor. The goal was to change the citation on the landing page of the 
package. Currently the citation looks like this:


Mar J, torrente Ld and Zimmerman S (2015). pathVar: Methods to Find Pathways 
with Significantly Different Variability. R package version 1.1.0.


However, I created a new CITATION file in the inst directory of my package. 
Below is the contents of the CITATION file


year <- sub("-.*", "", meta$Date)
note <- sprintf("R package version %s", meta$Version)

bibentry(bibtype = "Manual",title="pathVar: Methods to Find Pathways with 
Significantly Different Variability", author = c(person("Laurence","de 
Torrente"),person("Samuel","Zimmerman"),person("Jessica","Mar")),year = year, 
note = note,
textVersion = paste("de Torrente L, Zimmerman S, and Mar J (2015). pathVar: 
Methods to Find Pathways with Significantly Different Variability. R package 
version 1.1.2"))

Does anyone know why this is being ignored?

Also here is a link to the landing page of the devel version of the package: 
https://www.bioconductor.org/packages/3.3/bioc/html/pathVar.html

Thank you all very much for your help on this mailing list.

Best,
Sam


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[Bioc-devel] package citation and version is not updated

2016-01-29 Thread Ludwig Geistlinger 
Dear Dan,

For some reason the citation on my package's landing page

http://bioconductor.org/packages/EnrichmentBrowser.html

is not displayed in agreement with my inst/CITATION file.

Furthermore, the version number is also not up to date here, although
displayed correctly at the bottom of the page (--> Package Archives).

How to resolve this?

Thx,
Ludwig

-- 
Dipl.-Bioinf. Ludwig Geistlinger

Lehr- und Forschungseinheit für Bioinformatik
Institut für Informatik
Ludwig-Maximilians-Universität München
Amalienstrasse 17, 2. Stock, Büro A201
80333 München

Tel.: 089-2180-4067
eMail: ludwig.geistlin...@bio.ifi.lmu.de

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Re: [Bioc-devel] package citation and version is not updated

2016-01-29 Thread Dan Tenenbaum 
I will look into this, thanks for the report.
Dan


- Original Message -
> From: "Ludwig Geistlinger" 
> To: "bioc-devel" 
> Sent: Friday, January 29, 2016 2:06:37 AM
> Subject: [Bioc-devel] package citation and version is not updated

> Dear Dan,
> 
> For some reason the citation on my package's landing page
> 
> http://bioconductor.org/packages/EnrichmentBrowser.html
> 
> is not displayed in agreement with my inst/CITATION file.
> 
> Furthermore, the version number is also not up to date here, although
> displayed correctly at the bottom of the page (--> Package Archives).
> 
> How to resolve this?
> 
> Thx,
> Ludwig
> 
> --
> Dipl.-Bioinf. Ludwig Geistlinger
> 
> Lehr- und Forschungseinheit für Bioinformatik
> Institut für Informatik
> Ludwig-Maximilians-Universität München
> Amalienstrasse 17, 2. Stock, Büro A201
> 80333 München
> 
> Tel.: 089-2180-4067
> eMail: ludwig.geistlin...@bio.ifi.lmu.de
> 
> ___
> Bioc-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel

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Re: [Bioc-devel] question about citation file

2016-01-29 Thread Dan Tenenbaum 
I'll take a look.
Dan


- Original Message -
> From: "Samuel E Zimmerman" 
> To: "bioc-devel" 
> Sent: Friday, January 29, 2016 6:34:49 AM
> Subject: [Bioc-devel] question about citation file

> Hi Everyone,
> 
> I just uploaded a new version of my package "pathVar" to the development 
> branch
> of bioconductor. The goal was to change the citation on the landing page of 
> the
> package. Currently the citation looks like this:
> 
> 
> Mar J, torrente Ld and Zimmerman S (2015). pathVar: Methods to Find Pathways
> with Significantly Different Variability. R package version 1.1.0.
> 
> 
> However, I created a new CITATION file in the inst directory of my package.
> Below is the contents of the CITATION file
> 
> 
> year <- sub("-.*", "", meta$Date)
> note <- sprintf("R package version %s", meta$Version)
> 
> bibentry(bibtype = "Manual",title="pathVar: Methods to Find Pathways with
> Significantly Different Variability", author = c(person("Laurence","de
> Torrente"),person("Samuel","Zimmerman"),person("Jessica","Mar")),year = year,
> note = note,
> textVersion = paste("de Torrente L, Zimmerman S, and Mar J (2015). pathVar:
> Methods to Find Pathways with Significantly Different Variability. R package
> version 1.1.2"))
> 
> Does anyone know why this is being ignored?
> 
> Also here is a link to the landing page of the devel version of the package:
> https://www.bioconductor.org/packages/3.3/bioc/html/pathVar.html
> 
> Thank you all very much for your help on this mailing list.
> 
> Best,
> Sam
> 
> 
>   [[alternative HTML version deleted]]
> 
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Re: [Bioc-devel] package citation and version is not updated

2016-01-29 Thread Dan Tenenbaum 
This is fixed now. Thanks for the report.
Dan


- Original Message -
> From: "Ludwig Geistlinger" 
> To: "bioc-devel" 
> Sent: Friday, January 29, 2016 2:06:37 AM
> Subject: [Bioc-devel] package citation and version is not updated

> Dear Dan,
> 
> For some reason the citation on my package's landing page
> 
> http://bioconductor.org/packages/EnrichmentBrowser.html
> 
> is not displayed in agreement with my inst/CITATION file.
> 
> Furthermore, the version number is also not up to date here, although
> displayed correctly at the bottom of the page (--> Package Archives).
> 
> How to resolve this?
> 
> Thx,
> Ludwig
> 
> --
> Dipl.-Bioinf. Ludwig Geistlinger
> 
> Lehr- und Forschungseinheit für Bioinformatik
> Institut für Informatik
> Ludwig-Maximilians-Universität München
> Amalienstrasse 17, 2. Stock, Büro A201
> 80333 München
> 
> Tel.: 089-2180-4067
> eMail: ludwig.geistlin...@bio.ifi.lmu.de
> 
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> Bioc-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel

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Re: [Bioc-devel] question about citation file

2016-01-29 Thread Dan Tenenbaum 
I think you forgot to 'svn add' the CITATION file.
Dan


- Original Message -
> From: "Samuel E Zimmerman" 
> To: "bioc-devel" 
> Sent: Friday, January 29, 2016 6:34:49 AM
> Subject: [Bioc-devel] question about citation file

> Hi Everyone,
> 
> I just uploaded a new version of my package "pathVar" to the development 
> branch
> of bioconductor. The goal was to change the citation on the landing page of 
> the
> package. Currently the citation looks like this:
> 
> 
> Mar J, torrente Ld and Zimmerman S (2015). pathVar: Methods to Find Pathways
> with Significantly Different Variability. R package version 1.1.0.
> 
> 
> However, I created a new CITATION file in the inst directory of my package.
> Below is the contents of the CITATION file
> 
> 
> year <- sub("-.*", "", meta$Date)
> note <- sprintf("R package version %s", meta$Version)
> 
> bibentry(bibtype = "Manual",title="pathVar: Methods to Find Pathways with
> Significantly Different Variability", author = c(person("Laurence","de
> Torrente"),person("Samuel","Zimmerman"),person("Jessica","Mar")),year = year,
> note = note,
> textVersion = paste("de Torrente L, Zimmerman S, and Mar J (2015). pathVar:
> Methods to Find Pathways with Significantly Different Variability. R package
> version 1.1.2"))
> 
> Does anyone know why this is being ignored?
> 
> Also here is a link to the landing page of the devel version of the package:
> https://www.bioconductor.org/packages/3.3/bioc/html/pathVar.html
> 
> Thank you all very much for your help on this mailing list.
> 
> Best,
> Sam
> 
> 
>   [[alternative HTML version deleted]]
> 
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