Hello,
When trying to load data from
http://hgdownload.cse.ucsc.edu/goldenPath/hg38/database/
using Apollo-2.6.1/bin/ucsc-to-json.pl script, I get errors like
Cannot convert gwipsvizRiboseq track; this script is not capable of handling bigWig tracks.
(or)
Cannot convert phyloP100way track; this script is not capable of handling wig tracks.
(or)
Cannot convert mrna track; this script is not capable of handling psl tracks.
(or)
couldn't open /tmp/0FT2Jm8Ge5.sort: Too many open files
at /home/web-apollo-test-server/web-apollo-test-server/Apollo-2.6.1/bin/ucsc-to-json.pl line 286.
at /home/web-apollo-test-server/web-apollo-test-server/Apollo-2.6.1/jbrowse/bin/../src/perl5/Bio/JBrowse/ConfigurationManager.pm line 7.
Bio::JBrowse::ConfigurationManager::__ANON__("couldn't open /tmp/0FT2Jm8Ge5.sort: Too many open files\x{a} at /"...) called at /usr/share/perl/5.22/Carp.pm line 166
Carp::croak("couldn't open /tmp/0FT2Jm8Ge5.sort: Too many open files\x{a}") called at /home/web-apollo-test-server/web-apollo-test-server/Apollo-2.6.1/jbrowse/bin/../src/perl5/Bio/JBrowse/ExternalSorter.pm line 98
Bio::JBrowse::ExternalSorter::finish(Bio::JBrowse::ExternalSorter=HASH(0x2e4efe0)) called at /home/web-apollo-test-server/web-apollo-test-server/Apollo-2.6.1/bin/ucsc-to-json.pl line 286
The final error was seen when loading a large file. Is there a way to get past these errors?
Regards,
Shamika
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