[mira_talk] Re: 2 common messages problems while assembly Illumina paired-end sequences
- From: "Camila M." <kamynz16@xxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Wed, 12 Feb 2014 15:34:40 -0200
Anyone has any ideas? I'll appreciate it.
On Wed, Feb 12, 2014 at 12:06 PM, Camila M. <kamynz16@xxxxxxxxx> wrote:
> Hello All,
>
> As I said before, I'm doing a lot of Miras by groups of 500 Miras. I have
> 17 lists with 500 manifest files each.
>
> I thougth that I didn't have any problem with the first 1500 Miras (with
> the first 3 lists). However, I couldn't assembly 28 contigs of list 1, 29
> contigs of list 2, and 24 contigs of list 3.
>
> Mainly, I got these two error messages:
>
> 1) Thrown: void HashStatistics::loadHashStatisticsFile(string &
> hashstatfilename, uint8 basesperhash)
>
> 2) Thrown: void Assembly::dumpSomeStatistics()
>
>
> One of those manifest looks like this:
>
> project = comp4715_c0_seq1.mira
> job = est,denovo,accurate
> parameters = -GE:not=1 -NW:cmrnl=no -OUTPUT:output_result_html=yes
>
> readgroup = comp4715_c0_seq1._library_1
> data =
> /home/ABTLUS/maria.villa/RNASeq_Pseudozyma/read_by_contig/comp4715_c0_seq1_Glicose_1_ACTTGA_merge_R1_001.fastq
> /home/ABTLUS/maria.villa/RNASeq_Pseudozyma/read_by_contig/comp4715_c0_seq1_Glicose_1_ACTTGA_merge_R2_001.fastq
> technology = solexa
> strain = pseudozyma
> segment_placement= ---> <---
>
> readgroup = comp4715_c0_seq1._library_2
> data =
> /home/ABTLUS/maria.villa/RNASeq_Pseudozyma/read_by_contig/comp4715_c0_seq1_Xilano_1_AGTCAA_merge_R1_001.fastq
> /home/ABTLUS/maria.villa/RNASeq_Pseudozyma/read_by_contig/comp4715_c0_seq1_Xilano_1_AGTCAA_merge_R2_001.fastq
> technology = solexa
> strain = pseudozyma
> segment_placement= ---> <---
>
> readgroup = comp4715_c0_seq1._library_3
> data =
> /home/ABTLUS/maria.villa/RNASeq_Pseudozyma/read_by_contig/comp4715_c0_seq1_Xilose_1_GGCTAC_merge_R1_001.fastq
> /home/ABTLUS/maria.villa/RNASeq_Pseudozyma/read_by_contig/comp4715_c0_seq1_Xilose_1_GGCTAC_merge_R2_001.fastq
> technology = solexa
> strain = pseudozyma
> segment_placement= ---> <---
>
> --
> Camila M.
>
--
Camila M.
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