Hello,
My name is Pierre-Yves Chibon, I am one of the french ambassadors. I have just discovered this mailing list but I am glad to see that I am not the only one using R under Fedora :-) (not lot of french do so)
To shortly introduce myself, I am student doing a master in bioinformatics. And i will have to program under R so I have already done the RPMs needed for the software on which I will have to work. These RPMs are Biobase, Multtest, and Maanova (but this one was to try), they are all from the bioconductor website. Biobase and Multtest are waiting for reviews on bugzilla. And I am waiting for their review to make other RPMs :-)
I hope to be helpful in what I can do...
Sincerely yours, Pierre-Yves
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On Wed, 2007-05-23 at 22:22 +0200, pingou wrote:
Hello,
My name is Pierre-Yves Chibon, I am one of the french ambassadors. I have just discovered this mailing list but I am glad to see that I am not the only one using R under Fedora :-) (not lot of french do so)
To shortly introduce myself, I am student doing a master in bioinformatics. And i will have to program under R so I have already done the RPMs needed for the software on which I will have to work. These RPMs are Biobase, Multtest, and Maanova (but this one was to try), they are all from the bioconductor website. Biobase and Multtest are waiting for reviews on bugzilla. And I am waiting for their review to make other RPMs :-)
I hope to be helpful in what I can do...
Post the links to the bugzilla tickets? :)
~spot
On Wed, 2007-05-23 at 15:23 -0500, Tom "spot" Callaway wrote:
On Wed, 2007-05-23 at 22:22 +0200, pingou wrote:
Hello,
My name is Pierre-Yves Chibon, I am one of the french ambassadors. I have just discovered this mailing list but I am glad to see that I am not the only one using R under Fedora :-) (not lot of french do so)
To shortly introduce myself, I am student doing a master in bioinformatics. And i will have to program under R so I have already done the RPMs needed for the software on which I will have to work. These RPMs are Biobase, Multtest, and Maanova (but this one was to try), they are all from the bioconductor website. Biobase and Multtest are waiting for reviews on bugzilla. And I am waiting for their review to make other RPMs :-)
I hope to be helpful in what I can do...
Post the links to the bugzilla tickets? :)
OK, so when I looked at R-Biobase: https://bugzilla.redhat.com/bugzilla/show_bug.cgi?id=240500
I noted that it was missing R CMD check in a %check section.
Of course, now I remember why. There is a circular "dependency" loop between Biobase, tkWidgets and widgetTools when running R CMD check.
Biobase says it needs tkWidgets, tkWidgets says it needs Biobase. Neither is really true, but I'd rather have Biobase running the check than tkWidgets, so thats how I resolved the loop.
Occasionally, it is necessary to resolve this "check dependency loop" by not running check on a package. In those cases, please DOCUMENT in the spec file that the check command is commented out, and explain the loop you're breaking.
I whipped up the necessary missing packages here:
DynDoc: http://www.auroralinux.org/people/spot/review/R-DynDoc-1.14.0-1.fc7.src.rpm http://www.auroralinux.org/people/spot/review/R-DynDoc.spec
widgetTools: http://www.auroralinux.org/people/spot/review/R-widgetTools-1.12.0-1.fc7.src... http://www.auroralinux.org/people/spot/review/R-widgetTools.spec
tkWidgets: http://www.auroralinux.org/people/spot/review/R-tkWidgets-1.14.0-1.fc7.src.r... http://www.auroralinux.org/people/spot/review/R-tkWidgets.spec
Pingou, if you'd like to own these packages in Fedora, that is fine by me. If not, I'll put them up for review.
~spot
Tom "spot" Callaway a écrit :
On Wed, 2007-05-23 at 15:23 -0500, Tom "spot" Callaway wrote:
On Wed, 2007-05-23 at 22:22 +0200, pingou wrote:
Hello,
My name is Pierre-Yves Chibon, I am one of the french ambassadors. I have just discovered this mailing list but I am glad to see that I am not the only one using R under Fedora :-) (not lot of french do so)
To shortly introduce myself, I am student doing a master in bioinformatics. And i will have to program under R so I have already done the RPMs needed for the software on which I will have to work. These RPMs are Biobase, Multtest, and Maanova (but this one was to try), they are all from the bioconductor website. Biobase and Multtest are waiting for reviews on bugzilla. And I am waiting for their review to make other RPMs :-)
I hope to be helpful in what I can do...
Post the links to the bugzilla tickets? :)
OK, so when I looked at R-Biobase: https://bugzilla.redhat.com/bugzilla/show_bug.cgi?id=240500
I noted that it was missing R CMD check in a %check section.
Of course, now I remember why. There is a circular "dependency" loop between Biobase, tkWidgets and widgetTools when running R CMD check.
Biobase says it needs tkWidgets, tkWidgets says it needs Biobase. Neither is really true, but I'd rather have Biobase running the check than tkWidgets, so thats how I resolved the loop.
Occasionally, it is necessary to resolve this "check dependency loop" by not running check on a package. In those cases, please DOCUMENT in the spec file that the check command is commented out, and explain the loop you're breaking.
I whipped up the necessary missing packages here:
DynDoc: http://www.auroralinux.org/people/spot/review/R-DynDoc-1.14.0-1.fc7.src.rpm http://www.auroralinux.org/people/spot/review/R-DynDoc.spec
widgetTools: http://www.auroralinux.org/people/spot/review/R-widgetTools-1.12.0-1.fc7.src... http://www.auroralinux.org/people/spot/review/R-widgetTools.spec
tkWidgets: http://www.auroralinux.org/people/spot/review/R-tkWidgets-1.14.0-1.fc7.src.r... http://www.auroralinux.org/people/spot/review/R-tkWidgets.spec
Pingou, if you'd like to own these packages in Fedora, that is fine by me. If not, I'll put them up for review.
~spot
I do not mind to maintain them as I have no package yet. But it is up to you as you have just made them... (much faster than I did actually :-D)
I am checking my others RPMs to see if I have any mistake with the %check
Pingou
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On Wed, 2007-05-23 at 23:37 +0200, pingou wrote:
I do not mind to maintain them as I have no package yet. But it is up to you as you have just made them... (much faster than I did actually :-D)
Well, they're easy packages to make/maintain, since they're all off a basic template. I'll let you own them, as I have enough packages already.
Go ahead and put them up for review, and post the bugzilla numbers back to this thread.
~spot
Tom "spot" Callaway a écrit :
Go ahead and put them up for review, and post the bugzilla numbers back to this thread.
~spot
It is done :-) R-DynDoc https://bugzilla.redhat.com/bugzilla/show_bug.cgi?id=241079 R-widgetTools https://bugzilla.redhat.com/bugzilla/show_bug.cgi?id=241081 R-tkWidgets https://bugzilla.redhat.com/bugzilla/show_bug.cgi?id=241082
I have also updated my first package with the %check section (it works) https://bugzilla.redhat.com/bugzilla/show_bug.cgi?id=240497
Pingou
(btw I am seeking for a sponsor)
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Tom Callaway