fastqc doesn't generate report due to missing files
Affects | Status | Importance | Assigned to | Milestone | |
---|---|---|---|---|---|
fastqc (Ubuntu) |
Fix Released
|
Undecided
|
Unassigned |
Bug Description
It appears the fastqc package lacks a number of files required, which means that it cannot display the analysis results, even though it does seem to perform the analysis. This occurs both for the terminal and graphical version of fastqc. I've attached the terminal output of the program since it gives more useful debugging info. I believe the first error (before the progress indicators) is regarding a data file required for some parts of the analysis. The second error is about not finding an image required for generating a report.
Please note: though it runs, this bug makes the fastqc program completely useless since it will not generate any output.
$ fastqc 102517-
java.io.
at uk.ac.babraham.
at uk.ac.babraham.
at uk.ac.babraham.
at uk.ac.babraham.
Started analysis of 102517-
Approx 5% complete for 102517-
Approx 10% complete for 102517-
Approx 15% complete for 102517-
Approx 20% complete for 102517-
Approx 25% complete for 102517-
Approx 30% complete for 102517-
Approx 35% complete for 102517-
Approx 40% complete for 102517-
Approx 45% complete for 102517-
Approx 50% complete for 102517-
Approx 55% complete for 102517-
Approx 60% complete for 102517-
Approx 65% complete for 102517-
Approx 70% complete for 102517-
Approx 75% complete for 102517-
Approx 80% complete for 102517-
Approx 85% complete for 102517-
Approx 90% complete for 102517-
Approx 95% complete for 102517-
Analysis complete for 102517-
Failed to process file 102517-
java.lang.
at javax.imageio.
at uk.ac.babraham.
at uk.ac.babraham.
at uk.ac.babraham.
at uk.ac.babraham.
at uk.ac.babraham.
at java.lang.
ProblemType: Bug
DistroRelease: Ubuntu 14.10
Package: fastqc 0.11.2+dfsg-1
ProcVersionSign
Uname: Linux 3.16.0-34-generic x86_64
ApportVersion: 2.14.7-0ubuntu8.2
Architecture: amd64
CurrentDesktop: Unity
Date: Mon Apr 13 08:20:29 2015
Dependencies:
libcommons-
libjbzip2-java 0.9.1-3
libsam-java 1.113-1
InstallationDate: Installed on 2014-08-07 (248 days ago)
InstallationMedia: Ubuntu 14.04 LTS "Trusty Tahr" - Release amd64 (20140417)
PackageArchitec
SourcePackage: fastqc
UpgradeStatus: Upgraded to utopic on 2014-10-27 (167 days ago)
Status changed to 'Confirmed' because the bug affects multiple users.