[ensembl-dev] Error using Web Assembly Converter
Fin Swimmer
ensembl at need-login.de
Mon Oct 15 11:53:15 BST 2018
Hello,
I'm trying to convert a vcf file from GRCh38 to GRCh37 using Assembly
Converter
(http://www.ensembl.org/Homo_sapiens/Tools/AssemblyConverter/). The job
failed with this information:
Error with message: pysam.utils.SamtoolsError: 'samtools returned with
error 1: stdout=, stderr=Could not build fai index
/nfs/public/release/ensweb-data/latest/tools/www/e94/assembly_converter/homo_sapiens/Homo_sapiens.GRCh37.dna.toplevel.fa.fai\n'
Thrown by EnsEMBL::Web::RunnableDB::AssemblyConverter::run at
Bio::EnsEMBL::Hive::Process (140)
Thrown by (eval) at Bio::EnsEMBL::Hive::Process (127) Thrown by
Bio::EnsEMBL::Hive::Process::life_cycle at Bio::EnsEMBL::Hive::Worker
(681)
Thrown by (eval) at Bio::EnsEMBL::Hive::Worker (652) Thrown by
Bio::EnsEMBL::Hive::Worker::run_one_batch at Bio::EnsEMBL::Hive::Worker
(500)
Thrown by Bio::EnsEMBL::Hive::Worker::run at main (141) Thrown by
main::main at main (22)
It doesn't matter whether I uploaded my whole vcf file or just paste in
a part of it.
fin swimmer
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