Hi Federico,try setting up input file names as follows (replacing miraProjecName with your real mira project name...)
miraProjectName_backbone_in.fasta miraProjectName_in.454.fasta.qual miraProjectName_in.454.fasta miraProjectName_traceinfo_in.454.xmlNote that for the backbone file you shouldn't name it with ~backbone_in.454.fasta
Hope this helps Marina Federico Sanchez escribió:
Hi:Thanks for the quick answer. I just did what you suggeested me. and change the files to the _in.454.fasta format, for all of them (the quality file and the backbone too). However I am still getting an error with the backbone file --->Fatal Error (may be due to problems of the input data): "File not found: 454_muestra2_backbone_in.fasta"->Thrown: size_t ReadPool::loadDataFromFASTA(const string & filename, const uint8 loadaction, uint32 & longestread, const bool wantsqualfiletoexist, const string & qualfilename, const bool generatefilenames, const uint8 seqtype, const bool sxa_mustconvert)->Caught: mainProgram aborted, probably due to error in the input data or parametrisation.Please check the output log for more information. For help, please write a mail to the mira talk mailing list. CWD: /home/homes/users/fsanchez/MIRA_ASSEMBLY AbortedMy command line is the same but changing the backbone file to backbone_in.454.fasta instead of the 454_muestra2_backbone_in.fasta, what else could be going wrong? any suggestions?. At the moment I am not able to download the newer versions of mira but I hope mira 3.0.0 is up for the task./aplic/mira-3.0.0/bin/mira -fasta -project=454_muestra2 -job=mapping,genome,normal,454 --noclipping=all --notraceinfo COMMON_SETTINGS -AS:sd=yes -SK:mnr=no -SB:lb=yes:bsn=454_muestra2_backbone_in.454.fasta:bbq=100:bft=fasta:abnc=yesThanks again for the help FedericoOn Mon, Mar 15, 2010 at 11:36 AM, Jan Paces <hpaces@xxxxxxxxxx <mailto:hpaces@xxxxxxxxxx>> wrote:On 03/15/10 04:56, Federico Sanchez wrote: > 1) /aplic/mira-3.0.0/bin/mira -fasta -project=454_muestra2 > -job=mapping,genome,normal,454 --noclipping=all --notraceinfo > COMMON_SETTINGS -AS:sd=yes -SK:mnr=no > -SB:lb=yes:bsn=454_muestra2_backbone_in.fasta:bbq=100:bft=fasta:abnc=yes For mapping, I suggest to use mira-3.0.3, there were some problems with parsing input data in version 3.0.2 a maybe lower as well, I am not sure. As for the error with input files, you need _in.454. in the names - as pointed out by Sven befora I sent this email ;-) Jan -- You have received this mail because you are subscribed to the mira_talk mailing list. For information on how to subscribe or unsubscribe, please visit http://www.chevreux.org/mira_mailinglists.html