HoYong LEE

Sorry. I can't delete it.

Sorry. I can't delete it.

Sorry. I can't delete it.

Sorry. I can't delete it.

Hi. I'm new in Stxxl. I have some problem when using Stxxl. For small data (like 1M sequence), it works well. But when using large data (like 40M sequence), processes stuck on D state permanently. ( in a function of "get Sfx") I searched it but there was nothing happen like this in stxxl. when t = 1, it work well. but when after t << 1 ( t =2 ), processes stuck on D stake. I think problematic part is here. because no print out "cnt1 finished" at " t =2." for (int i = 0; i<n; i++) cnt[g[min(i + t,...

Hi. I'm new in Stxxl. I have some problem when using Stxxl. For small data (like 1M sequence), it works well. But when using large data (like 40M sequence), processes stuck on D state permanently. ( in a function of "get Sfx") I searched it but there was nothing happen like this in stxxl. when t = 1, it work well. but when after t << 1 ( t =2 ), processes stuck on D stake. I think problematic part is here. because no print out "cnt1 finished" at " t =2." for (int i = 0; i<n; i++) cnt[g[min(i + t,...

Thanks for your help. I have another problems. I tried to use long read fasta with metassembler results. It works well till nucmer. when running nucmer, error happen like prenuc: tigrinc.cc:337: int ReadString(FILE, char&, long int&, char, int): Assertion 'Len > 0 && Line [Len - 1] == '\n'' failed. Aborted (core dumped) ERROR: prenuc returned non-zero ERROR: Could not parse delta file, MergePipeline/B.A.delta error no: 400 ERROR: Could not parse delta file, MergePipeline/B.A.1delta error no: 402...

Hi. I'm Lee. I'm now running Metassembler using Pig-tailed rhesus data(154G). it works well(bowtie2, mateAn, etc) but have problem in MUMmer : [TIME]. I searched and changed MUMmer because my reference sequence is larger than is supported by default. After changing, It makes another file (B.A.ntref - 3G , B.A.mgaps - 140G). I think it is used when making B.A.delta. but it take too much time ( 17 days now and still working - 43G). Is there any method to reduce time like parallel processing? And I...