That works, thanks! On Thu, Sep 24, 2015 at 11:11 AM, Jens Timmerman <[email protected]> wrote:
> Hi Niek, > > SOURCELOWER_TAR_BZ2 results in 'bridger-r2014.12.01' > so this wil not work in the sources field. > > your version seems wrong aswell > This seems to work for me: > > > easyblock = 'MakeCp' > > name = 'Bridger' > version = 'r2014-12-01' > > homepage = 'https://wiki.gacrc.uga.edu/wiki/Bridger' > description = """Bridger is an efficient de novo trascriptome assembler > for RNA-Seq data. """ > > toolchain = {'name': 'goolf', 'version': '1.7.20'} > toolchainopts = {'pic': True, 'usempi': True} > > > sources = ['%(name)s_%(version)s.tar.gz'] > source_urls = [('http://downloads.sourceforge.net/project/rnaseqassembly > ')] > > > files_to_copy = [('Assemble','bin/')] > > moduleclass = 'bio' > > On 24/09/15 10:55, Niek de Klein wrote: > > Hi easybuild list, > > I'm trying to install Bridger from sourceforge. The sourceforge link is: > > > sourceforge.net/projects/rnaseqassembly/files/Bridger_r2014-12-01.tar.gz/download > > > > So I tried using > > name = 'Bridger' > version = 'r2014.12.01' > [..] > source_urls = [SOURCEFORGE_SOURCE] > sources = ['%%(name)s_%s.tar.gz' % '-'.join(version.split('.'))] > > but this does not find the file to download. Looking at other programs > installed from sourceforge it looks for this > > > sourceforge.net/projects/rnaseqassembly/files/bridger//2014.12.01/Bridger_2014-12-01.tar.gz/download > > so I think because this does not make use of > <tool>/<version>/<tool_version.tar.gz> SOURCEFORGE_SOURCE won't work, > correct? > > So then I tried with > > source_urls = ['sourceforge.net/projects/rnaseqassembly/files/'] > sources = ['%%(name)s_%s.tar.gz/download' % > '-'.join(version.split('.'))] > > But this gives the error > Unknown file type for file > /apps/sources/b/Bridger/Bridger_r2014-12-01.tar.gz/download (['download'])") > > Without /download at the end it doesn't find the url. > > Other things I have tried: > > source_urls = ['sourceforge.net/projects/rnaseqassembly/files/'] > sources = [('%%(name)s_%s.tar.gz' % > '-'.join(version.split('.')),'download')] > > > sources = [SOURCELOWER_TAR_BZ2] > source_urls = [('http://sourceforge.net/projects/rnaseqassembly/files/', > 'download')] > > and > > sources = [SOURCELOWER_TAR_BZ2] > source_urls = [('http://sourceforge.net/projects/rnaseqassembly/', > 'download')] > > But then the files can't be found. I don't know what else to try, how can > I get this downloaded from sourceforge? Below the full .eb file for > replication: > > easyblock = 'MakeCp' > > name = 'Bridger' > version = 'r2014.12.01' > > homepage = 'https://wiki.gacrc.uga.edu/wiki/Bridger' > description = """Bridger is an efficient de novo trascriptome assembler > for RNA-Seq data. """ > > toolchain = {'name': 'goolf', 'version': '1.7.20'} > toolchainopts = {'pic': True, 'usempi': True} > > > sources = [SOURCELOWER_TAR_BZ2] > source_urls = [('http://sourceforge.net/projects/rnaseqassembly/files', > 'download')] > > > files_to_copy = [('Assemble','bin/')] > > moduleclass = 'bio' > > > > > >
