Hi all,
When I'm installing GBrowse I'm experiencing some problems. When it comes to the point of running ./Build installdeps to fix the dependencies that are lacking, one of these is Bio:B::File. When trying to install it, it asks me to provide the path to the kent source tree. When I do, it doesn't find that it needs to find in there, which are two files, jkweb.a and bigWig.h.
This is the complete output:
I already tried exporting the $KENT_SRC variable, it doesn't work. Moreover, if you search the two files through the shell command "find" you will find them.
Has anybody encountered this problem so far? Please help, I really need a solution to this. Thank you very much in advance!
When I'm installing GBrowse I'm experiencing some problems. When it comes to the point of running ./Build installdeps to fix the dependencies that are lacking, one of these is Bio:B::File. When trying to install it, it asks me to provide the path to the kent source tree. When I do, it doesn't find that it needs to find in there, which are two files, jkweb.a and bigWig.h.
This is the complete output:
Code:
root@{machine}:/../GBrowse# ./Build installdeps Checking optional dependencies: GBrowse installer [Install DB_File::Lock?] n GBrowse installer [Install Bio::DB::BigFile?] y Reading '/root/.cpan/Metadata' Database was generated on Mon, 11 Jul 2016 09:17:02 GMT Running install for module 'Bio::DB::BigFile' Checksum for /root/.cpan/sources/authors/id/L/LD/LDS/Bio-BigFile-1.07.tar.gz ok Configuring L/LD/LDS/Bio-BigFile-1.07.tar.gz with Build.PL This module requires the compiled jkweb.a library from Jim Kent's source tree. If you haven't already done so, please download the source from http://hgdownload.cse.ucsc.edu/admin/jksrc.zip, unpack it, and build the contents of the "kent/src/lib" subdirectory as directed in the README. Then enter the location of the "kent/src" subdirectory at the prompt below. To prevent this message from appearing in the future, set the environment variable KENT_SRC to point to the "kent/src" subdirectory. Please enter the location of Kent source tree: /home/schmat/programs/kentUtils/src Can't find the bigWig.h and jkweb.a files at this location.
Code:
root@{machine}:/../kentUtils/src# find . -name bigWig.h && find . -name jkweb.a ./inc/bigWig.h ./lib/local/jkweb.a
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