User: maria.faleeva

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Posts by maria.faleeva

<prev • 7 results • page 1 of 1 • next >
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Comment: C: How do I see my log.progress.out file
... and I can run this line of code whilst the initial code is running? ...
written 14 days ago by maria.faleeva0
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Comment: C: How do I see my log.progress.out file
... I am currently trying to run STAR --runThreadN 4 --genomeDir genome_index --readFilesCommand gunzip -c --readFilesIn /Users/mfaleeva/Desktop/Day30/Day-30-R1_S1_L008_R1_001.fastq.gz /Users/mfaleeva/Desktop/Day30/Day-30-R1_S1_L008_R2_001.fastq.gz --outSAMattrRGline ID:Day30_R1 For some reason, ...
written 14 days ago by maria.faleeva0
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How do I see my log.progress.out file
... Hi there, I am mapping my FASTQ files using STAR, but it is taking a rather long time. In order to check if everything is ok I want to look at my log.progress.out files, but the file that I currently have in the directory doesnt have a format/does not let me open it. Does anybody know how to check t ...
fastq star terminal rna-seq written 14 days ago by maria.faleeva0
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Comment: C: Any idea on how long fastq mapping takes in STAR?
... I already have indexed Homo_sapiens.GRCh38.dna.primary_assembly.fa, when you mean not enough RAM as in, it shall never work, or it shall take a very very long time to work? ...
written 15 days ago by maria.faleeva0
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Any idea on how long fastq mapping takes in STAR?
... Hey guys, any clue on how long it should take to map two fastq files using STAR? I think the two fastq files combined are around 6bg, and my computer is running on 16gb ram. I put the thread number as 4. Havnt been able to find any insight elsewhere, so was wondering whether anyone had any experi ...
fastq star rna-seq mapping written 15 days ago by maria.faleeva0
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Comment: C: EXITING: because of fatal INPUT file error: could not open read file
... Sorry for stupid question, but if the STAR command didnt run because of the error, why would the files be there anyway? ...
written 15 days ago by maria.faleeva0
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Comment: C: EXITING: because of fatal INPUT file error: could not open read file
... (base) Marias-MBP:genome_index mfaleeva$ ls -l total 8 -rw-r--r-- 1 mfaleeva staff 0 11 Jan 19:16 Aligned.out.sam -rw-r--r-- 1 mfaleeva staff 2612 11 Jan 19:16 Log.out -rw-r--r-- 1 mfaleeva staff 0 11 Jan 19:16 Log.progress.out drwx------ 5 mfaleeva staff ...
written 15 days ago by maria.faleeva0

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