GNU bug report logs -
#44345
[PATCH 1/2] gnu: Add r-metafor.
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bug#44345
; Package
guix-patches
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(Sat, 31 Oct 2020 15:12:02 GMT)
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Aniket Patil <aniket112.patil <at> gmail.com>
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(Sat, 31 Oct 2020 15:12:02 GMT)
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Message #5 received at submit <at> debbugs.gnu.org (full text, mbox):
* gnu/packages/cran.scm (r-metafor): New variable.
---
gnu/packages/cran.scm | 39 +++++++++++++++++++++++++++++++++++++++
1 file changed, 39 insertions(+)
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index 75d9ae7de2..cc4e5f2bba 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -24745,3 +24745,42 @@ mutations in each of 96 trinucleotide contexts and identifies
the weighted combination of published signatures that, when summed,
most closely reconstructs the mutational profile.")
(license license:gpl2+)))
+
+(define-public r-metafor
+ (package
+ (name "r-metafor")
+ (version "2.4-0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (cran-uri "metafor" version))
+ (sha256
+ (base32
+ "1b599fxk7s0brkchmx698fr5k4g1kzkia2rnlvhg349ffs5nfjmn"))))
+ (properties `((upstream-name . "metafor")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-matrix" ,r-matrix)
+ ("r-nlme" ,r-nlme)))
+ (home-page
+ "https://cran.r-project.org/web/packages/metafor")
+ (synopsis "Meta-Analysis Package for R")
+ (description
+ "This package provides a comprehensive collection of
+functions for conducting meta-analyses in R. The package
+includes functions to calculate various effect sizes or outcome
+measures, fit fixed-, random-, and mixed-effects models to such
+data, carry out moderator and meta-regression analyses, and create
+various types of meta-analytical plots (e.g., forest, funnel, radial,
+L'Abbe, Baujat, GOSH plots). For meta-analyses of binomial and
+person-time data, the package also provides functions that implement
+specialized methods, including the Mantel-Haenszel method, Peto's
+method, and a variety of suitable generalized linear (mixed-effects)
+models (i.e., mixed-effects logistic and Poisson regression models).
+Finally, the package provides functionality for fitting meta-analytic
+multivariate/multilevel models that account for non-independent
+sampling errors and/or true effects (e.g., due to the inclusion of
+multiple treatment studies, multiple endpoints, or other forms of clustering).
+Network meta-analyses and meta-analyses accounting for known correlation
+structures (e.g., due to phylogenetic relatedness) can also be conducted.")
+ (license license:gpl2+)))
--
2.28.0
Merged 44345 44346.
Request was from
zimoun <zimon.toutoune <at> gmail.com>
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control <at> debbugs.gnu.org
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(Mon, 02 Nov 2020 11:48:01 GMT)
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bug#44345
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(Tue, 22 Dec 2020 18:31:02 GMT)
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Message #10 received at 44345 <at> debbugs.gnu.org (full text, mbox):
Hi Aniket,
On Sat, 31 Oct 2020 at 20:38, Aniket Patil <aniket112.patil <at> gmail.com> wrote:
> * gnu/packages/cran.scm (r-metafor): New variable.
> ---
> gnu/packages/cran.scm | 39 +++++++++++++++++++++++++++++++++++++++
> 1 file changed, 39 insertions(+)
>
> diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
> index 75d9ae7de2..cc4e5f2bba 100644
> --- a/gnu/packages/cran.scm
> +++ b/gnu/packages/cran.scm
Idem than bug#44311. <http://issues.guix.gnu.org/issue/44311>
Repeat here to easy the reading. :-)
The patch does not apply because the file gnu/packages/cran.scm changed
in the meantime. I am sorry that we have not been enough reactive.
However, when creating the patch, you had used the option ’--base’;
which really helps because I would be able to apply it and rebase
myself.
Currently, I do not know how to do without copy/pasting by hand, so
loosing your authorship. Could you rebase on the top of master?
If you cannot, no worry. Just let me know.
All the best,
simon
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bug#44345
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(Tue, 22 Dec 2020 20:47:01 GMT)
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Message #13 received at submit <at> debbugs.gnu.org (full text, mbox):
Hi Simon,
>
> On Sat, 31 Oct 2020 at 20:38, Aniket Patil <aniket112.patil <at> gmail.com> wrote:
>> * gnu/packages/cran.scm (r-metafor): New variable.
>> ---
>> gnu/packages/cran.scm | 39 +++++++++++++++++++++++++++++++++++++++
>> 1 file changed, 39 insertions(+)
>>
>> diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
>> index 75d9ae7de2..cc4e5f2bba 100644
>> --- a/gnu/packages/cran.scm
>> +++ b/gnu/packages/cran.scm
>
> Idem than bug#44311. <http://issues.guix.gnu.org/issue/44311>
>
> Repeat here to easy the reading. :-)
>
> The patch does not apply because the file gnu/packages/cran.scm changed
> in the meantime. I am sorry that we have not been enough reactive.
You can still apply the patch with “git am -C0” to ignore all context.
Sometimes with patches that add packages this works.
--
Ricardo
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bug#44345
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(Tue, 22 Dec 2020 20:47:02 GMT)
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Reply sent
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Ricardo Wurmus <rekado <at> elephly.net>
:
You have taken responsibility.
(Tue, 22 Dec 2020 22:33:02 GMT)
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Aniket Patil <aniket112.patil <at> gmail.com>
:
bug acknowledged by developer.
(Tue, 22 Dec 2020 22:33:02 GMT)
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Message #21 received at 44345-done <at> debbugs.gnu.org (full text, mbox):
zimoun <zimon.toutoune <at> gmail.com> writes:
> Hi Aniket,
>
> On Sat, 31 Oct 2020 at 20:38, Aniket Patil <aniket112.patil <at> gmail.com> wrote:
>> * gnu/packages/cran.scm (r-metafor): New variable.
>> ---
>> gnu/packages/cran.scm | 39 +++++++++++++++++++++++++++++++++++++++
>> 1 file changed, 39 insertions(+)
>>
>> diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
>> index 75d9ae7de2..cc4e5f2bba 100644
>> --- a/gnu/packages/cran.scm
>> +++ b/gnu/packages/cran.scm
>
> Idem than bug#44311. <http://issues.guix.gnu.org/issue/44311>
>
> Repeat here to easy the reading. :-)
>
> The patch does not apply because the file gnu/packages/cran.scm changed
> in the meantime. I am sorry that we have not been enough reactive.
I applied the two patches with commit
6d1160db8e16ee0da5b38c5297cf22cd6dd230d6.
I used “git am -C0” to ignore mismatched context. I also updated the
descriptions and re-indented the definitions.
--
Ricardo
Reply sent
to
Ricardo Wurmus <rekado <at> elephly.net>
:
You have taken responsibility.
(Tue, 22 Dec 2020 22:33:02 GMT)
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Notification sent
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Aniket Patil <aniket112.patil <at> gmail.com>
:
bug acknowledged by developer.
(Tue, 22 Dec 2020 22:33:02 GMT)
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Information forwarded
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guix-patches <at> gnu.org
:
bug#44345
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guix-patches
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(Wed, 23 Dec 2020 08:49:02 GMT)
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Message #29 received at 44345-done <at> debbugs.gnu.org (full text, mbox):
Hi Ricardo,
On Tue, 22 Dec 2020 at 23:32, Ricardo Wurmus <rekado <at> elephly.net> wrote:
> I applied the two patches with commit
> 6d1160db8e16ee0da5b38c5297cf22cd6dd230d6.
>
> I used “git am -C0” to ignore mismatched context. I also updated the
> descriptions and re-indented the definitions.
Thanks for both, the tip and the patch application.
Cheers,
simon
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(Wed, 20 Jan 2021 12:24:05 GMT)
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This bug report was last modified 3 years and 91 days ago.
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