Class 24: Parsing fastq lab

May 22, 2020

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Session log

Luis Perez
2020-05-22 08:59:35
**Class started**
Luis Perez
2020-05-22 09:10:39
**Entering breakout rooms**
Natanya Villegas
2020-05-22 09:50:44
My breakout partner is leaving
👍1
Natanya Villegas
2020-05-22 09:50:50
Can I join a new group>
Rachel Lutz
2020-05-22 10:02:17
Is anyone else with a mac being plagued by the rainbow swirl today or just me?
Mike Harms
2020-05-22 10:03:24
Maybe post the offending code block?
Rachel Lutz
2020-05-22 10:05:05
My partners have been using the code well; it seems like my computer is just getting a bit stressed/ my internet connection may not be great?
Mike Harms
2020-05-22 10:05:55
If you are using the : 
with open(some_file) as f:
    for line in f.readlines():
        do_stuff
synatax, this should not be a particularly heavy computational problem.
👍1
Rachel Lutz
2020-05-22 10:05:55
As I am trying to work on this code I keep getting interrupted by the swirl
Mike Harms
2020-05-22 10:07:45
you are using the variable itwice, in two different contexts. The `for i in range(len(l_ascii.strip())` line will wipe out your i = 0etc. block at the top. That might not be sole cause, but that is a problem.
😅1
Rachel Lutz
2020-05-22 10:08:07
OH okay!! That makes sense I will fix that ASAP
Luis Perez
2020-05-22 10:49:45
**Leaving breakout rooms**
Polly Poll
2020-05-22 10:50:38
Poll by @Luis Perez
I would rate my understanding of the material in the 05_high-throughput-sequencing notebook as:
😱⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ 0
🙁⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ 0
😐███████████████ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢15
🙂⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ 0
😄██████████ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢ ⁢10
Luis Perez
2020-05-22 10:50:50
**Class ending**