Hi Abria, see below...
On Tue, 2015-07-07 at 17:00 +0000, Abria Magee wrote: > I ran mauve on windows to generate an alignment of about 20 genomes. I > used that alignment on the Linux machine to stripSubsetLCBs. I > received the following error: > Storing raw sequence at /tmp/rawseq7173.000 > terminate called after throwing an instance of > 'boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<std::ios_base::failure> > >' > what(): failed mapping file: Cannot allocate memory > Aborted (core dumped) > > I ran the following command: > /home/Analysis_Tools/mauve_snapshot_2015-02-13/linux-x64/progressi > veMauve /home/ahaynes/MRPAClonalFrame/stripSubsetLCBs > /home/ahaynes/MRPAClonalFrame/MRPA_Alignment_mauve > /home/ahaynes/MRPAClonalFrame/MRPA_Alignment_mauve.bbcols core_alignmen > t.xmfa 500 > > > Could you help me get this working please? Thanks! The software is trying to store temporary files in the system's /tmp directory. Can you check that the directory is writeable and the disk partition is not full? Note that you should be able to redirect the temporary storage used by the mauve command-line software by setting the TMPDIR environment variable, e.g. in bash: mkdir $HOME/tmp export TMPDIR=$HOME/tmp Best, -Aaron -- Aaron E. Darling, Ph.D. Associate Professor, ithree institute University of Technology Sydney Australia http://darlinglab.org twitter: @koadman UTS CRICOS Provider Code: 00099F DISCLAIMER: This email message and any accompanying attachments may contain confidential information. If you are not the intended recipient, do not read, use, disseminate, distribute or copy this message or attachments. If you have received this message in error, please notify the sender immediately and delete this message. Any views expressed in this message are those of the individual sender, except where the sender expressly, and with authority, states them to be the views of the University of Technology Sydney. Before opening any attachments, please check them for viruses and defects. Think. Green. Do. Please consider the environment before printing this email. ------------------------------------------------------------------------------ Don't Limit Your Business. Reach for the Cloud. GigeNET's Cloud Solutions provide you with the tools and support that you need to offload your IT needs and focus on growing your business. Configured For All Businesses. Start Your Cloud Today. https://www.gigenetcloud.com/ _______________________________________________ Mauve-users mailing list Mauve-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/mauve-users
