Re: [Bioc-devel] shrunken vignette

2016-07-18 Thread Andrzej Oleś
Hi Anand, Kasper, thank you for reporting the problems with `BiocStyle::html_document2` format function. As already noted by Kasper, the new HTML output style is still work in progress. I will look into improving the formatting of TOC, see https://github.com/Bioconductor/BiocStyle/issues/6. Cheer

Re: [Bioc-devel] Submission of a revision of a package

2016-07-18 Thread Dan Tenenbaum
Packages that were submitted to the old tracker should continue to use the old tracker. It looks like your review is in progress in the old tracker: you have been assigned a reviewer who has sent you comments about your package. Dan - Original Message - > From: "Mathieu EMILY" > To:

Re: [Bioc-devel] package devel page not available

2016-07-18 Thread Hervé Pagès
Hi Ludwig, On 07/18/2016 01:27 AM, Ludwig Geistlinger wrote: Hi, I am trying to access the devel page of my package https://www.bioconductor.org/packages/devel/bioc/html/EnrichmentBrowser.html but I am obtaining Page Not Found The page you were looking for was not found. What is the reason

[Bioc-devel] Submission of a revision of a package

2016-07-18 Thread Mathieu EMILY
Dear all, I first submitted my package GeneGeneInteR with the old version of the issue tracker the 25th of May. I sent a revision of my package the 17th of june, but in the meanwhile the Github submission has opened. Should I use the Github-based tracker to submit the revision of my packag

Re: [Bioc-devel] package devel page not available

2016-07-18 Thread Martin Morgan
On 07/18/2016 10:10 AM, Ludwig Geistlinger wrote: Thx Martin, I've missed that. BTW: Is there a best practice for incorporating packages that are not maintained anymore? Am I supposed to copy the part of the discontinued package I am building on and include that in my package? Or am I able to s

[Bioc-devel] lazyData

2016-07-18 Thread Kasper Daniel Hansen
This is a report on my testing with lazyData turned on and off wrt. installation time and memory requirements. It turns out that using lazyData dramatically increases memory consumption and time for a (admittedly large) annotation package. Perhaps this is something we should think about wrt. anno

Re: [Bioc-devel] package devel page not available

2016-07-18 Thread Ludwig Geistlinger
Thx Martin, I've missed that. BTW: Is there a best practice for incorporating packages that are not maintained anymore? Am I supposed to copy the part of the discontinued package I am building on and include that in my package? Or am I able to somehow import from an archived version of the packag

Re: [Bioc-devel] package devel page not available

2016-07-18 Thread Martin Morgan
On 07/18/2016 04:27 AM, Ludwig Geistlinger wrote: Hi, I am trying to access the devel page of my package https://www.bioconductor.org/packages/devel/bioc/html/EnrichmentBrowser.html but I am obtaining Page Not Found The page you were looking for was not found. What is the reason for that?

[Bioc-devel] package devel page not available

2016-07-18 Thread Ludwig Geistlinger
Hi, I am trying to access the devel page of my package https://www.bioconductor.org/packages/devel/bioc/html/EnrichmentBrowser.html but I am obtaining Page Not Found The page you were looking for was not found. What is the reason for that? Thx, Ludwig -- Dr. Ludwig Geistlinger Lehr- und F