[PATCH 0/2] Add r-htqpcr and r-unifiedwmwqpcr.

DoneSubmitted by zimoun.
Details
2 participants
  • Ludovic Courtès
  • zimoun
Owner
unassigned
Severity
normal
Z
Z
zimoun wrote on 8 Oct 2019 18:53
(address . guix-patches@gnu.org)(name . zimoun)(address . zimon.toutoune@gmail.com)
20191008165307.903-1-zimon.toutoune@gmail.com
Dear,
These patches add two BioConductor packages.
The licenses are compliant with the ones find in the file 'DESCRIPTION' but`guix build' reports:
installing 0 license files from '.'

All the best,simon

zimoun (2): gnu: Add r-htqpcr. gnu: Add r-unifiedwmwqpcr.
gnu/packages/bioconductor.scm | 59 +++++++++++++++++++++++++++++++++++ 1 file changed, 59 insertions(+)
-- 2.21.0
Z
Z
zimoun wrote on 8 Oct 2019 19:35
[PATCH 1/2] gnu: Add r-htqpcr.
(address . 37666@debbugs.gnu.org)(name . zimoun)(address . zimon.toutoune@gmail.com)
20191008173518.1074-1-zimon.toutoune@gmail.com
* gnu/packages/bioconductor.scm (r-htqpcr): New variable.--- gnu/packages/bioconductor.scm | 34 ++++++++++++++++++++++++++++++++++ 1 file changed, 34 insertions(+)
Toggle diff (51 lines)diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scmindex 7b0405427c..4fc4ffbce2 100644--- a/gnu/packages/bioconductor.scm+++ b/gnu/packages/bioconductor.scm@@ -2,6 +2,7 @@ ;;; Copyright © 2016, 2017, 2018, 2019 Ricardo Wurmus <rekado@elephly.net> ;;; Copyright © 2016, 2017, 2018 Roel Janssen <roel@gnu.org> ;;; Copyright © 2017, 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr>+;;; Copyright © 2019 Simon Tournier <zimon.toutoune@gmail.com> ;;; ;;; This file is part of GNU Guix. ;;;@@ -6048,3 +6049,36 @@ attributable to individual, tissue, time point, or technical variables. The package includes dream differential expression analysis for repeated measures.") (license license:gpl2+)))++(define-public r-htqpcr+ (package+ (name "r-htqpcr")+ (version "1.38.0")+ (source+ (origin+ (method url-fetch)+ (uri (bioconductor-uri "HTqPCR" version))+ (sha256+ (base32+ "09xgj797f0qsbm4jswxw7ijjwa4jxg06bfkq66xfhbvascyyrhg7"))))+ (properties `((upstream-name . "HTqPCR")))+ (build-system r-build-system)+ (propagated-inputs+ `(("r-affy" ,r-affy)+ ("r-biobase" ,r-biobase)+ ("r-gplots" ,r-gplots)+ ("r-limma" ,r-limma)+ ("r-rcolorbrewer" ,r-rcolorbrewer)))+ (home-page "http://www.ebi.ac.uk/bertone/software")+ (synopsis "Automated analysis of high-throughput qPCR data")+ (description+ "Analysis of Ct values from high throughput quantitative real-time+PCR (qPCR) assays across multiple conditions or replicates. The input data+can be from spatially-defined formats such ABI TaqMan Low Density Arrays or+OpenArray; LightCycler from Roche Applied Science; the CFX plates from Bio-Rad+Laboratories; conventional 96- or 384-well plates; or microfluidic devices+such as the Dynamic Arrays from Fluidigm Corporation. HTqPCR handles data+loading, quality assessment, normalization, visualization and parametric or+non-parametric testing for statistical significance in Ct values between+features (e.g. genes, microRNAs).")+ (license license:artistic2.0)))-- 2.21.0
Z
Z
zimoun wrote on 8 Oct 2019 19:35
[PATCH 1/1] gnu: Add r-unifiedwmwqpcr.
(address . 37666@debbugs.gnu.org)(name . zimoun)(address . zimon.toutoune@gmail.com)
20191008173518.1074-2-zimon.toutoune@gmail.com
* gnu/packages/bioconductor.scm (r-unifiedwmwqpcr): New variable.--- gnu/packages/bioconductor.scm | 25 +++++++++++++++++++++++++ 1 file changed, 25 insertions(+)
Toggle diff (35 lines)diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scmindex 4fc4ffbce2..9cd36fc69c 100644--- a/gnu/packages/bioconductor.scm+++ b/gnu/packages/bioconductor.scm@@ -6082,3 +6082,28 @@ loading, quality assessment, normalization, visualization and parametric or non-parametric testing for statistical significance in Ct values between features (e.g. genes, microRNAs).") (license license:artistic2.0)))++(define-public r-unifiedwmwqpcr+ (package+ (name "r-unifiedwmwqpcr")+ (version "1.20.0")+ (source+ (origin+ (method url-fetch)+ (uri (bioconductor-uri "unifiedWMWqPCR" version))+ (sha256+ (base32+ "10j70bp5y1x2prz2iagqmwf04y79yqinq08wz4ilh8wggb9f7l8a"))))+ (properties+ `((upstream-name . "unifiedWMWqPCR")))+ (build-system r-build-system)+ (propagated-inputs+ `(("r-biocgenerics" ,r-biocgenerics)+ ("r-htqpcr" ,r-htqpcr)))+ (home-page "https://bioconductor.org/packages/unifiedWMWqPCR")+ (synopsis "Unified Wilcoxon-Mann Whitney Test for differential expression in qPCR data")+ (description+ "This packages implements the unified Wilcoxon-Mann-Whitney Test for qPCR+data. This modified test allows for testing differential expression in qPCR+data.")+ (license license:gpl2+)))-- 2.21.0
Z
Z
zimoun wrote on 8 Oct 2019 19:35
[PATCH 2/2] gnu: Add r-unifiedwmwqpcr.
(address . 37666@debbugs.gnu.org)(name . zimoun)(address . zimon.toutoune@gmail.com)
20191008173518.1074-3-zimon.toutoune@gmail.com
* gnu/packages/bioconductor.scm (r-unifiedwmwqpcr): New variable.--- gnu/packages/bioconductor.scm | 25 +++++++++++++++++++++++++ 1 file changed, 25 insertions(+)
Toggle diff (35 lines)diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scmindex 4fc4ffbce2..9cd36fc69c 100644--- a/gnu/packages/bioconductor.scm+++ b/gnu/packages/bioconductor.scm@@ -6082,3 +6082,28 @@ loading, quality assessment, normalization, visualization and parametric or non-parametric testing for statistical significance in Ct values between features (e.g. genes, microRNAs).") (license license:artistic2.0)))++(define-public r-unifiedwmwqpcr+ (package+ (name "r-unifiedwmwqpcr")+ (version "1.20.0")+ (source+ (origin+ (method url-fetch)+ (uri (bioconductor-uri "unifiedWMWqPCR" version))+ (sha256+ (base32+ "10j70bp5y1x2prz2iagqmwf04y79yqinq08wz4ilh8wggb9f7l8a"))))+ (properties+ `((upstream-name . "unifiedWMWqPCR")))+ (build-system r-build-system)+ (propagated-inputs+ `(("r-biocgenerics" ,r-biocgenerics)+ ("r-htqpcr" ,r-htqpcr)))+ (home-page "https://bioconductor.org/packages/unifiedWMWqPCR")+ (synopsis "Unified Wilcoxon-Mann Whitney Test for differential expression in qPCR data")+ (description+ "This packages implements the unified Wilcoxon-Mann-Whitney Test for qPCR+data. This modified test allows for testing differential expression in qPCR+data.")+ (license license:gpl2+)))-- 2.21.0
L
L
Ludovic Courtès wrote on 15 Oct 2019 14:13
Re: [bug#37666] [PATCH 1/2] gnu: Add r-htqpcr.
(name . zimoun)(address . zimon.toutoune@gmail.com)(address . 37666-done@debbugs.gnu.org)
875zkqw6iz.fsf@gnu.org
Hello!
zimoun <zimon.toutoune@gmail.com> skribis:
Toggle quote (2 lines)> * gnu/packages/bioconductor.scm (r-htqpcr): New variable.
[...]
Toggle quote (2 lines)> * gnu/packages/bioconductor.scm (r-unifiedwmwqpcr): New variable.
Applied, thanks! :-)
Ludo’.
Closed
?
Your comment

This issue is archived.

To comment on this conversation send email to 37666@debbugs.gnu.org