| Summary: | new ebuilds: bioconductor dependencies | ||
|---|---|---|---|
| Product: | Gentoo Linux | Reporter: | Gontran Zepeda <gontran> |
| Component: | New packages | Assignee: | Default Assignee for New Packages <maintainer-wanted> |
| Status: | RESOLVED WONTFIX | ||
| Severity: | enhancement | CC: | gentoo, sci-biology |
| Priority: | High | Keywords: | EBUILD |
| Version: | unspecified | ||
| Hardware: | All | ||
| OS: | Linux | ||
| Whiteboard: | |||
| Package list: | Runtime testing required: | --- | |
| Bug Depends on: | |||
| Bug Blocks: | 25710 | ||
| Attachments: |
Rgraphviz-1.0.3.ebuild
dev-libs/graph-1.1.10 dev-libs/rsxml files/GNUmakefile |
||
|
Description
Gontran Zepeda
2003-08-01 09:24:47 UTC
Created attachment 15322 [details]
Rgraphviz-1.0.3.ebuild
Created attachment 15324 [details]
dev-libs/graph-1.1.10
Needed for bootstrap of bioconductor, but not replaced by!
Created attachment 15326 [details]
dev-libs/rsxml
Needed by graph. Needed for biocunductor bootstrap, not replaced after
bioconductor installed. An actual dependency!
Created attachment 15328 [details]
files/GNUmakefile
Needed to compile rsxml -- overlooked in the dist somehow!
The whole build process for bioconductor is a bit funny in that if
building in the ${D} alternate library location R can't find
dependencies for the package that come with the package.
Um, that sounds dumb. R just doesn't look for things in the right
places using R INSTALL --library XXX/ZZZ .... etc. Anyway. Using this
included dep graph you can get bioconductor installed. But then
dev-libs/graph is obsolete! Weird.
Sorry it's not pristine, sniff!
Over in bug 25710 I submitted a dev-R portage directory that contains all of the bioconductor packages broken apart and individually installable. RGtk is known to be broken because it fails to find pkg-config and gtk-config even when gtk is fully installed. This package also has all of the needed CRAN packages and all dep's should be sorted out. Let me know what you think. |
