Hello, I have installed "blast" on the server and updated datatypes.xml by copying datatypes.xml.sample. This removes the last three errors from stderror. Still working on: Error running cuffdiff. [12:48:21] Loading reference annotation. Warning: No conditions are replicated, switching to 'blind' dispersion method [12:48:33] Inspecting maps and determining fragment length distributions. terminate called after throwing an instance of 'boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<boost::thread_resource_error>>' what(): boost::thread_resource_error: Resource temporarily unavailable -Rob On Mon, Jun 24, 2013 at 11:36 AM, Robert Chase <rerpc@channing.harvard.edu>wrote:
Hello,
I have reinstalled cufflinks from source and now I get a new error. I am using the Cuffdiff wrapper (version 0.0.6) and cufflinks-2.1.1. The boxes come back green but there is no output and there is a message in the standard error box.
Error running cuffdiff. [21:34:00] Loading reference annotation. Warning: No conditions are replicated, switching to 'blind' dispersion method [21:34:12] Inspecting maps and determining fragment length distributions. terminate called after throwing an instance of 'boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<boost::thread_resource_error> >' what(): boost::thread_resource_error: Resource temporarily unavailable
WARNING:galaxy.datatypes.registry:Error loading datatype with extension 'blastxml': 'module' object has no attribute 'BlastXml' WARNING:galaxy.datatypes.registry:Error loading datatype with extension 'wsf': 'module' object has no attribute 'wsf' WARNING:galaxy.datatypes.registry:Error appending sniffer for datatype 'galaxy.datatypes.xml:BlastXml' to sniff_order: 'module' object has no attribute 'BlastXml'
Thankyou,
-Rob
On Tue, Jun 11, 2013 at 5:40 PM, James Taylor <james@jamestaylor.org>wrote:
[galaxy@q ~]$ /bin/cuffdiff /bin/cuffdiff: /usr/lib64/libz.so.1: no version information available (required by /bin/cuffdiff) cuffdiff v2.0.2 (3522)
This definitely indicates a problem with your cuffdiff install. Did you build cuffdiff on that system or install in some other way? (very odd to have it installed in /bin).