Package: sra-toolkit Version: 2.3.5-2+dfsg-1 Severity: grave Justification: renders package unusable
Dear Maintainer, The latf-load binary from sra-toolkit package doesn't load data from fastq files to directory - it will ends up with these errors: $ latf-load -q PHRED_33 -o Desktop/test Desktop/test.fastq 2016-05-15T13:51:17 latf-load.2.3.5 warn: Deprecated argument '-q' may not be supported in future releases. Please use '--quality' instead. 2016-05-15T13:51:17 latf-load.2.3.5 err: path not found while opening directory within file system module - file="align/align.vschema" 2016-05-15T13:51:17 latf-load.2.3.5 err: path not found while opening directory within file system module - failed to parse schema file align/align.vschema 2016-05-15T13:51:17 latf-load.2.3.5 err: path not found while opening directory within file system module - accession="test" errors="0" status="failure" 2016-05-15T13:51:17 latf-load.2.3.5 err: path not found while opening directory within file system module - load failed It seems the binary doesn't see the necessary vschema files. There is everything fine on the upstream package. The temporary solution is to copy/symlink schema directory from upstream package (latest version) to /usr - this works fine. I think the problem influence other binaries too, but I don't know - didn't try. I tryed this on the clean Debian 8 installation - the problem remains. -- System Information: Debian Release: 8.4 APT prefers stable-updates APT policy: (500, 'stable-updates'), (500, 'stable') Architecture: i386 (i686) Kernel: Linux 3.16.0-4-686-pae (SMP w/1 CPU core) Locale: LANG=sk_SK.UTF-8, LC_CTYPE=sk_SK.UTF-8 (charmap=UTF-8) Shell: /bin/sh linked to /bin/dash Init: systemd (via /run/systemd/system) Versions of packages sra-toolkit depends on: ii libbz2-1.0 1.0.6-7+b3 ii libc6 2.19-18+deb8u4 ii libxml2 2.9.1+dfsg1-5+deb8u1 ii sra-toolkit-libs0 2.3.5-2+dfsg-1 ii zlib1g 1:1.2.8.dfsg-2+b1 sra-toolkit recommends no packages. sra-toolkit suggests no packages. -- no debconf information
