Hello, I am about to give my first steps through Mira. I have prepared a Manifest that I am attaching with some other detailed information regarding the species and conditions of the experiment, which I am also including here below: # manifest for MIRA assembler # prepared for a hexaploid plant species. # Data from RNAseq. Two technologies: FLX-454-single (normalized) and Illumina-100bp-paired (non-normalized) # Because of the polyploidy, each gene is suppose to have 3 copies. Copies are HIGHLY similar to one another # Reads have gone through several rounds of quality control, including elimination of duplicates # Expected coverage 70-80x for Illumina and 10-15x for 454 Mira runs smoothly until it finishes uploading the reads, when I get this error: ... ... Loading reads from /panfs/roc/groups/4/shared/454/sorted/4stages_RL12_no5dup.fastq type fastq Localtime: Fri Nov 15 09:32:08 2013 Loading data from FASTQ file: /panfs/roc/groups/4/shared/454/sorted/4stages_RL12_no5dup.fastq (sorry, no progress indicator for that, possible only with zlib >=1.34) Done. Loaded 869281 reads, Localtime: Fri Nov 15 09:32:23 2013 Looking at FASTQ type ... guessing FASTQ-33 (Sanger) Running quality values adaptation ... done. Loading reads from /panfs/roc/groups/4/shared/110831_SN261_0376_AD0D1MABXX/fastq_flt/prinseq/prinseq_90/pair_R1_ALL_good_prinseq_90bp.fastuniq-nodup_prinseq_good_D1CE.fastq type fastq Localtime: Fri Nov 15 09:32:23 2013 Loading data from FASTQ file: /panfs/roc/groups/4/shared/110831_SN261_0376_AD0D1MABXX/fastq_flt/prinseq/prinseq_90/pair_R1_ALL_good_prinseq_90bp.fastuniq-nodup_prinseq_good_D1CE.fastq (sorry, no progress indicator for that, possible only with zlib >=1.34) Done. Loaded 89644924 reads, Localtime: Fri Nov 15 09:40:27 2013 Looking at FASTQ type ... guessing FASTQ-33 (Sanger) Running quality values adaptation ... done. Loading reads from /panfs/roc/groups/4/garvin/shared/gutierre/110831_SN261_0376_AD0D1MABXX/fastq_flt/prinseq/prinseq_90/pair_R2_ALL_good_prinseq_90bp.fastuniq-nodup_prinseq_good_N7T6.fastq type fastq Localtime: Fri Nov 15 09:41:04 2013 Loading data from FASTQ file: /panfs/roc/groups/4/shared/110831_SN261_0376_AD0D1MABXX/fastq_flt/prinseq/prinseq_90/pair_R2_ALL_good_prinseq_90bp.fastuniq-nodup_prinseq_good_N7T6.fastq (sorry, no progress indicator for that, possible only with zlib >=1.34) Failure, wrapped MIRA process aborted. -------------------- Also do you find that the parameters make sense for such organism? Congratulations on Mira, I am impressed with the amount of time and effort has been put into it. Thanks for making our scientific lives much easier, Juan This electronic message contains information generated by the USDA solely for the intended recipients. Any unauthorized interception of this message or the use or disclosure of the information it contains may violate the law and subject the violator to civil or criminal penalties. If you believe you have received this message in error, please notify the sender and delete the email immediately.
Attachment:
Manifest.conf
Description: Manifest.conf
