Created
September 28, 2017 02:49
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SRA libraries for B. oleracea and rapa where len(R1) != len(R2)
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| Oleracea/fastq/SRR1212999_1.fastq has different read lengths, 100 and 99 | |
| Oleracea/fastq/SRR1213000_1.fastq has different read lengths, 100 and 99 | |
| Oleracea/fastq/SRR1212998_1.fastq has different read lengths, 100 and 99 | |
| Oleracea/fastq/SRR1213087_1.fastq has different read lengths, 100 and 0 | |
| Rapa/fastq/SRR1777752_1.fastq has different read lengths, 71 and 76 | |
| Rapa/fastq/SRR496614_1.fastq has different read lengths, 156 and 142 | |
| Rapa/fastq/SRR396843_1.fastq has different read lengths, 156 and 142 | |
| Rapa/fastq/SRR385951_1.fastq has different read lengths, 156 and 142 | |
| Rapa/fastq/SRR385948_1.fastq has different read lengths, 106 and 92 | |
| Rapa/fastq/SRR385947_1.fastq has different read lengths, 156 and 142 | |
| Rapa/fastq/SRR385946_1.fastq has different read lengths, 106 and 92 | |
| Rapa/fastq/SRR396842_1.fastq has different read lengths, 106 and 92 | |
| Rapa/fastq/SRR385942_1.fastq has different read lengths, 106 and 92 | |
| Rapa/fastq/SRR385944_1.fastq has different read lengths, 156 and 142 | |
| Rapa/fastq/SRR385945_1.fastq has different read lengths, 156 and 142 |
forgot to update this, but these have been fixed. feel free to send me other SRA/NCBI data issues you come across.
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three of the Oleracea are really 101x100. the mate1 files all begin with an 'N'. pulling SRR1213087 from tape to take a look
the Rapa were misloaded due to a typo in submission. - we catch this situation for the past couple years but haven't cleaned up all old mistakes. before downloading, you can check stats from statistics block on RunBrowser web page or pull xml by adding &retmode=xml param like this:
https://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?run=SRR496614&retmode=xml
right now it looks like this:
<Statistics nreads="2" nspots="125742182"> <Read index="0" count="125742182" average="157" stdev="0"/> <Read index="1" count="125742182" average="143" stdev="0"/> </Statistics>these are queued for reload tonight (along with a few hundred others)
after reload these will be even 150/150 , 100/100, or 75/75