在開(kāi)始對(duì)比時(shí)灾螃，使用如下參數(shù)
STAR \
--genomeDir STAR \
--runThreadN 39 \
--readFilesIn /raid1/wzw/Ensete/hisat/Ensete_RNA_1.fq /raid1/wzw/Ensete/hisat/Ensete_RNA_2.fq \
--readFilesType Fastx\
--outFileNamePrefix ECLrna_ \
--outSAMtype BAM SortedByCoordinate \
--outBAMsortingThreadN 39 \
--outSAMstrandField intronMotif \
--outFilterIntronMotifs RemoveNoncanonical
出現(xiàn)如下錯(cuò)誤
BAMoutput.cpp:27:BAMoutput: exiting because of OUTPUT FILE error: could not create output file ECLrna_STARtmp//BAMsort/8/80
SOLUTION: check that the path exists and you have write permission for this file. Also check ulimit -n and increase it to allow more open files.
閱讀錯(cuò)誤發(fā)現(xiàn)應(yīng)該是bamsort的時(shí)候會(huì)使用大量進(jìn)程竖独，導(dǎo)致超過(guò)了最大線程數(shù)調(diào)整--outBAMsortingThreadN 參數(shù)到5
--outBAMsortingThreadN 39
終于正常運(yùn)行了
