Notebook

Archiving of Ostrea lurida (Olympia oyster) MBD-BSseq Data from ZymoResearch¶

In [1]:

!date

Wed Feb  3 09:59:11 PST 2016

Print system info¶

In [2]:

%%bash
system_profiler SPSoftwareDataType

Software:

    System Software Overview:

      System Version: OS X 10.9.5 (13F34)
      Kernel Version: Darwin 13.4.0
      Boot Volume: Hummingbird
      Boot Mode: Normal
      Computer Name: hummingbird
      User Name: Sam (Sam)
      Secure Virtual Memory: Enabled
      Time since boot: 74 days 19:49

List files provided by ZymoResearch¶

In [6]:

%%bash
ls /Volumes/owl_home/mbdseq/

checksums.md5
seqfiles.txt
zr1394_10_s1_R1.fastq.gz
zr1394_10_s2_R1.fastq.gz
zr1394_10_s3_R1.fastq.gz
zr1394_10_s4_R1.fastq.gz
zr1394_10_s5_R1.fastq.gz
zr1394_10_s6_R1.fastq.gz
zr1394_11_s1_R1.fastq.gz
zr1394_11_s2_R1.fastq.gz
zr1394_11_s3_R1.fastq.gz
zr1394_11_s4_R1.fastq.gz
zr1394_11_s5_R1.fastq.gz
zr1394_11_s6_R1.fastq.gz
zr1394_12_s1_R1.fastq.gz
zr1394_12_s2_R1.fastq.gz
zr1394_12_s3_R1.fastq.gz
zr1394_12_s4_R1.fastq.gz
zr1394_12_s5_R1.fastq.gz
zr1394_12_s6_R1.fastq.gz
zr1394_13_s1_R1.fastq.gz
zr1394_13_s2_R1.fastq.gz
zr1394_13_s3_R1.fastq.gz
zr1394_13_s4_R1.fastq.gz
zr1394_13_s5_R1.fastq.gz
zr1394_13_s6_R1.fastq.gz
zr1394_14_s1_R1.fastq.gz
zr1394_14_s2_R1.fastq.gz
zr1394_14_s3_R1.fastq.gz
zr1394_14_s4_R1.fastq.gz
zr1394_14_s5_R1.fastq.gz
zr1394_14_s6_R1.fastq.gz
zr1394_15_s1_R1.fastq.gz
zr1394_15_s2_R1.fastq.gz
zr1394_15_s3_R1.fastq.gz
zr1394_15_s4_R1.fastq.gz
zr1394_15_s5_R1.fastq.gz
zr1394_15_s6_R1.fastq.gz
zr1394_16_s1_R1.fastq.gz
zr1394_16_s2_R1.fastq.gz
zr1394_16_s3_R1.fastq.gz
zr1394_16_s4_R1.fastq.gz
zr1394_16_s5_R1.fastq.gz
zr1394_16_s6_R1.fastq.gz
zr1394_17_s1_R1.fastq.gz
zr1394_17_s2_R1.fastq.gz
zr1394_17_s3_R1.fastq.gz
zr1394_17_s4_R1.fastq.gz
zr1394_17_s5_R1.fastq.gz
zr1394_17_s6_R1.fastq.gz
zr1394_18_s1_R1.fastq.gz
zr1394_18_s2_R1.fastq.gz
zr1394_18_s3_R1.fastq.gz
zr1394_18_s4_R1.fastq.gz
zr1394_18_s5_R1.fastq.gz
zr1394_18_s6_R1.fastq.gz
zr1394_1_s1_R1.fastq.gz
zr1394_1_s2_R1.fastq.gz
zr1394_1_s3_R1.fastq.gz
zr1394_1_s4_R1.fastq.gz
zr1394_1_s5_R1.fastq.gz
zr1394_1_s6_R1.fastq.gz
zr1394_2_s1_R1.fastq.gz
zr1394_2_s2_R1.fastq.gz
zr1394_2_s3_R1.fastq.gz
zr1394_2_s4_R1.fastq.gz
zr1394_2_s5_R1.fastq.gz
zr1394_2_s6_R1.fastq.gz
zr1394_3_s1_R1.fastq.gz
zr1394_3_s2_R1.fastq.gz
zr1394_3_s3_R1.fastq.gz
zr1394_3_s4_R1.fastq.gz
zr1394_3_s5_R1.fastq.gz
zr1394_3_s6_R1.fastq.gz
zr1394_4_s1_R1.fastq.gz
zr1394_4_s2_R1.fastq.gz
zr1394_4_s3_R1.fastq.gz
zr1394_4_s4_R1.fastq.gz
zr1394_4_s5_R1.fastq.gz
zr1394_4_s6_R1.fastq.gz
zr1394_5_s1_R1.fastq.gz
zr1394_5_s2_R1.fastq.gz
zr1394_5_s3_R1.fastq.gz
zr1394_5_s4_R1.fastq.gz
zr1394_5_s5_R1.fastq.gz
zr1394_5_s6_R1.fastq.gz
zr1394_6_s1_R1.fastq.gz
zr1394_6_s2_R1.fastq.gz
zr1394_6_s3_R1.fastq.gz
zr1394_6_s4_R1.fastq.gz
zr1394_6_s5_R1.fastq.gz
zr1394_6_s6_R1.fastq.gz
zr1394_7_s1_R1.fastq.gz
zr1394_7_s2_R1.fastq.gz
zr1394_7_s3_R1.fastq.gz
zr1394_7_s4_R1.fastq.gz
zr1394_7_s5_R1.fastq.gz
zr1394_7_s6_R1.fastq.gz
zr1394_8_s1_R1.fastq.gz
zr1394_8_s2_R1.fastq.gz
zr1394_8_s3_R1.fastq.gz
zr1394_8_s4_R1.fastq.gz
zr1394_8_s5_R1.fastq.gz
zr1394_8_s6_R1.fastq.gz
zr1394_9_s1_R1.fastq.gz
zr1394_9_s2_R1.fastq.gz
zr1394_9_s3_R1.fastq.gz
zr1394_9_s4_R1.fastq.gz
zr1394_9_s5_R1.fastq.gz
zr1394_9_s6_R1.fastq.gz

Count the number of files¶

In [4]:

%%bash
ls -1 /Volumes/owl_home/mbdseq/ | wc -l

Generate md5 checksums file¶

In [5]:

%%bash

#For loop generates a md5 checksum has value for each file
#and appends the output to the checksums.md5 file.
time for file in /Volumes/owl_home/mbdseq/*.gz
    do
        md5 "$file" >> /Volumes/owl_home/mbdseq/checksums.md5
        done

real	23m13.177s
user	2m36.667s
sys	0m44.913s

Calculate total number of reads generated by this project¶

In [7]:

%%bash

totalreads=0#Initializes variable.

#For loop counts the lines in each file and divides them by four. This is performed because
#Illumina sequencing files are composed of four lines per read.
#A running total of the total number of reads is generated [totalreads=$((readcount+totalreads))]
#and is printed after the for loop completes.
time for file in /Volumes/owl_home/mbdseq/*.gz
    do linecount=`gunzip -c "$file" | wc -l`
    readcount=$((linecount/4))
    totalreads=$((readcount+totalreads))
done
echo $totalreads

1481836875

bash: line 2: variable.: command not found

real	52m19.145s
user	28m18.301s
sys	3m16.723s

Calculate number of reads per file and append filename and corresponding number of reads to readme file¶

In [8]:

%%bash

#For loop counts the lines in each file and divides them by four. This is performed because
#Illumina sequencing files are composed of four lines per read.
#Format the output (printf) to print the filename, followed by a tab, followed by the readcount.
#The command "tee -a" is used to both print the output to the screen and append the output to the readme.md file.
time for file in /Volumes/owl_home/mbdseq/*.gz
    do linecount=`gunzip -c "$file" | wc -l`
    readcount=$(($linecount/4))
    printf "%s\t%s\n\n" "${file##*/}" "$readcount" | tee -a  /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/readme.md
done

zr1394_10_s1_R1.fastq.gz	12129726

zr1394_10_s2_R1.fastq.gz	11482874

zr1394_10_s3_R1.fastq.gz	10547199

zr1394_10_s4_R1.fastq.gz	26306980

zr1394_10_s5_R1.fastq.gz	26573036

zr1394_10_s6_R1.fastq.gz	26384567

zr1394_11_s1_R1.fastq.gz	7893266

zr1394_11_s2_R1.fastq.gz	7495554

zr1394_11_s3_R1.fastq.gz	6775729

zr1394_11_s4_R1.fastq.gz	18477911

zr1394_11_s5_R1.fastq.gz	18305906

zr1394_11_s6_R1.fastq.gz	18325711

zr1394_12_s1_R1.fastq.gz	9669005

zr1394_12_s2_R1.fastq.gz	9147875

zr1394_12_s3_R1.fastq.gz	8338418

zr1394_12_s4_R1.fastq.gz	20188420

zr1394_12_s5_R1.fastq.gz	20006134

zr1394_12_s6_R1.fastq.gz	19958692

zr1394_13_s1_R1.fastq.gz	9840016

zr1394_13_s2_R1.fastq.gz	9358447

zr1394_13_s3_R1.fastq.gz	8578615

zr1394_13_s4_R1.fastq.gz	21598254

zr1394_13_s5_R1.fastq.gz	21823361

zr1394_13_s6_R1.fastq.gz	21660067

zr1394_14_s1_R1.fastq.gz	13367447

zr1394_14_s2_R1.fastq.gz	12782967

zr1394_14_s3_R1.fastq.gz	11914441

zr1394_14_s4_R1.fastq.gz	29782244

zr1394_14_s5_R1.fastq.gz	29515814

zr1394_14_s6_R1.fastq.gz	29473848

zr1394_15_s1_R1.fastq.gz	10879464

zr1394_15_s2_R1.fastq.gz	10267923

zr1394_15_s3_R1.fastq.gz	9425665

zr1394_15_s4_R1.fastq.gz	23084106

zr1394_15_s5_R1.fastq.gz	22853637

zr1394_15_s6_R1.fastq.gz	22920249

zr1394_16_s1_R1.fastq.gz	11242167

zr1394_16_s2_R1.fastq.gz	10639584

zr1394_16_s3_R1.fastq.gz	9717312

zr1394_16_s4_R1.fastq.gz	25050434

zr1394_16_s5_R1.fastq.gz	25317275

zr1394_16_s6_R1.fastq.gz	25082606

zr1394_17_s1_R1.fastq.gz	6292243

zr1394_17_s2_R1.fastq.gz	5878505

zr1394_17_s3_R1.fastq.gz	5300767

zr1394_17_s4_R1.fastq.gz	14329557

zr1394_17_s5_R1.fastq.gz	14186344

zr1394_17_s6_R1.fastq.gz	14214584

zr1394_18_s1_R1.fastq.gz	8197198

zr1394_18_s2_R1.fastq.gz	7871675

zr1394_18_s3_R1.fastq.gz	6898091

zr1394_18_s4_R1.fastq.gz	18627445

zr1394_18_s5_R1.fastq.gz	18447543

zr1394_18_s6_R1.fastq.gz	18484693

zr1394_1_s1_R1.fastq.gz	6768171

zr1394_1_s2_R1.fastq.gz	7088611

zr1394_1_s3_R1.fastq.gz	6127974

zr1394_1_s4_R1.fastq.gz	15875631

zr1394_1_s5_R1.fastq.gz	15747941

zr1394_1_s6_R1.fastq.gz	15775841

zr1394_2_s1_R1.fastq.gz	7073025

zr1394_2_s2_R1.fastq.gz	6596118

zr1394_2_s3_R1.fastq.gz	6079643

zr1394_2_s4_R1.fastq.gz	15635185

zr1394_2_s5_R1.fastq.gz	15492802

zr1394_2_s6_R1.fastq.gz	15538451

zr1394_3_s1_R1.fastq.gz	7293076

zr1394_3_s2_R1.fastq.gz	6737811

zr1394_3_s3_R1.fastq.gz	6144269

zr1394_3_s4_R1.fastq.gz	16379997

zr1394_3_s5_R1.fastq.gz	16260168

zr1394_3_s6_R1.fastq.gz	16286455

zr1394_4_s1_R1.fastq.gz	6649632

zr1394_4_s2_R1.fastq.gz	6270620

zr1394_4_s3_R1.fastq.gz	5813100

zr1394_4_s4_R1.fastq.gz	15241034

zr1394_4_s5_R1.fastq.gz	15080117

zr1394_4_s6_R1.fastq.gz	15090774

zr1394_5_s1_R1.fastq.gz	7149560

zr1394_5_s2_R1.fastq.gz	6855766

zr1394_5_s3_R1.fastq.gz	6226422

zr1394_5_s4_R1.fastq.gz	16122713

zr1394_5_s5_R1.fastq.gz	15952921

zr1394_5_s6_R1.fastq.gz	15974422

zr1394_6_s1_R1.fastq.gz	6614004

zr1394_6_s2_R1.fastq.gz	6355162

zr1394_6_s3_R1.fastq.gz	5529830

zr1394_6_s4_R1.fastq.gz	15735916

zr1394_6_s5_R1.fastq.gz	15596312

zr1394_6_s6_R1.fastq.gz	15612183

zr1394_7_s1_R1.fastq.gz	7571742

zr1394_7_s2_R1.fastq.gz	7125072

zr1394_7_s3_R1.fastq.gz	6436872

zr1394_7_s4_R1.fastq.gz	16920844

zr1394_7_s5_R1.fastq.gz	16731051

zr1394_7_s6_R1.fastq.gz	16747458

zr1394_8_s1_R1.fastq.gz	6146166

zr1394_8_s2_R1.fastq.gz	5775399

zr1394_8_s3_R1.fastq.gz	5262335

zr1394_8_s4_R1.fastq.gz	13117656

zr1394_8_s5_R1.fastq.gz	12994067

zr1394_8_s6_R1.fastq.gz	13024791

zr1394_9_s1_R1.fastq.gz	11259296

zr1394_9_s2_R1.fastq.gz	11063708

zr1394_9_s3_R1.fastq.gz	9830662

zr1394_9_s4_R1.fastq.gz	26183621

zr1394_9_s5_R1.fastq.gz	25958649

zr1394_9_s6_R1.fastq.gz	26004238

real	53m32.491s
user	28m18.631s
sys	3m17.064s

Move files to Owl web folder¶

In [12]:

%%bash

time mv -n /Volumes/owl_home/mbdseq/*.gz /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/

mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_2_s5_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_3_s1_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_3_s2_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_3_s4_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_home/mbdseq/zr1394_3_s5_R1.fastq.gz: No such file or directory
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_4_s1_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_4_s2_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_4_s3_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_4_s5_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_home/mbdseq/zr1394_4_s6_R1.fastq.gz: No such file or directory
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_5_s2_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_5_s4_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_5_s6_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_6_s1_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_home/mbdseq/zr1394_6_s2_R1.fastq.gz: No such file or directory
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_6_s4_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_6_s6_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_7_s1_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_7_s3_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_7_s5_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_7_s6_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_home/mbdseq/zr1394_8_s1_R1.fastq.gz: No such file or directory
mv: /Volumes/owl_home/mbdseq/zr1394_8_s2_R1.fastq.gz: No such file or directory
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_8_s4_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_8_s6_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_9_s2_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_9_s3_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/zr1394_9_s5_R1.fastq.gz: set owner/group (was: 504/20): Operation not permitted
mv: /Volumes/owl_home/mbdseq/zr1394_9_s6_R1.fastq.gz: No such file or directory

real	9m49.431s
user	0m0.798s
sys	1m4.919s

In [14]:

%%bash

time mv -nf /Volumes/owl_home/mbdseq/checksums.md5 /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/

mv: /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/checksums.md5: set owner/group (was: 504/20): Operation not permitted

real	0m0.748s
user	0m0.001s
sys	0m0.004s

Verify files have been moved - only "seqfiles.txt" should remain (temp work file)¶

In [15]:

%%bash

ls /Volumes/owl_home/mbdseq/

seqfiles.txt

In [2]:

%%bash

ls -lh /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/ | cut -d ' ' -f7-

  9.5K Feb  3 14:23 checksums.md5
  3.6K Feb  3 13:06 readme.md
  440M Feb  2 17:04 zr1394_10_s1_R1.fastq.gz
  406M Feb  2 17:05 zr1394_10_s2_R1.fastq.gz
  369M Feb  2 17:09 zr1394_10_s3_R1.fastq.gz
  850M Feb  2 17:16 zr1394_10_s4_R1.fastq.gz
  859M Feb  2 17:20 zr1394_10_s5_R1.fastq.gz
  853M Feb  2 17:20 zr1394_10_s6_R1.fastq.gz
  288M Feb  2 17:13 zr1394_11_s1_R1.fastq.gz
  266M Feb  2 17:14 zr1394_11_s2_R1.fastq.gz
  238M Feb  2 17:16 zr1394_11_s3_R1.fastq.gz
  601M Feb  2 17:21 zr1394_11_s4_R1.fastq.gz
  595M Feb  2 17:23 zr1394_11_s5_R1.fastq.gz
  596M Feb  2 17:24 zr1394_11_s6_R1.fastq.gz
  349M Feb  2 17:24 zr1394_12_s1_R1.fastq.gz
  322M Feb  2 17:23 zr1394_12_s2_R1.fastq.gz
  290M Feb  2 17:25 zr1394_12_s3_R1.fastq.gz
  649M Feb  2 17:32 zr1394_12_s4_R1.fastq.gz
  643M Feb  2 17:31 zr1394_12_s5_R1.fastq.gz
  641M Feb  2 17:32 zr1394_12_s6_R1.fastq.gz
  356M Feb  2 17:28 zr1394_13_s1_R1.fastq.gz
  329M Feb  2 17:29 zr1394_13_s2_R1.fastq.gz
  298M Feb  2 17:32 zr1394_13_s3_R1.fastq.gz
  695M Feb  2 17:38 zr1394_13_s4_R1.fastq.gz
  703M Feb  2 17:41 zr1394_13_s5_R1.fastq.gz
  697M Feb  2 17:41 zr1394_13_s6_R1.fastq.gz
  485M Feb  2 17:39 zr1394_14_s1_R1.fastq.gz
  451M Feb  2 17:38 zr1394_14_s2_R1.fastq.gz
  416M Feb  2 17:43 zr1394_14_s3_R1.fastq.gz
  957M Feb  2 17:50 zr1394_14_s4_R1.fastq.gz
  949M Feb  2 17:50 zr1394_14_s5_R1.fastq.gz
  947M Feb  2 17:54 zr1394_14_s6_R1.fastq.gz
  394M Feb  2 17:46 zr1394_15_s1_R1.fastq.gz
  362M Feb  2 17:48 zr1394_15_s2_R1.fastq.gz
  329M Feb  2 17:51 zr1394_15_s3_R1.fastq.gz
  745M Feb  2 17:56 zr1394_15_s4_R1.fastq.gz
  737M Feb  2 17:59 zr1394_15_s5_R1.fastq.gz
  739M Feb  2 17:59 zr1394_15_s6_R1.fastq.gz
  408M Feb  2 17:56 zr1394_16_s1_R1.fastq.gz
  376M Feb  2 17:58 zr1394_16_s2_R1.fastq.gz
  340M Feb  2 18:00 zr1394_16_s3_R1.fastq.gz
  811M Feb  2 18:06 zr1394_16_s4_R1.fastq.gz
  820M Feb  2 18:09 zr1394_16_s5_R1.fastq.gz
  812M Feb  2 18:10 zr1394_16_s6_R1.fastq.gz
  230M Feb  2 18:02 zr1394_17_s1_R1.fastq.gz
  209M Feb  2 18:03 zr1394_17_s2_R1.fastq.gz
  186M Feb  2 18:04 zr1394_17_s3_R1.fastq.gz
  467M Feb  2 18:09 zr1394_17_s4_R1.fastq.gz
  463M Feb  2 18:11 zr1394_17_s5_R1.fastq.gz
  464M Feb  2 18:13 zr1394_17_s6_R1.fastq.gz
  296M Feb  2 18:12 zr1394_18_s1_R1.fastq.gz
  277M Feb  2 18:12 zr1394_18_s2_R1.fastq.gz
  240M Feb  2 18:13 zr1394_18_s3_R1.fastq.gz
  598M Feb  2 18:17 zr1394_18_s4_R1.fastq.gz
  593M Feb  2 18:17 zr1394_18_s5_R1.fastq.gz
  594M Feb  2 18:17 zr1394_18_s6_R1.fastq.gz
  237M Feb  2 16:16 zr1394_1_s1_R1.fastq.gz
  256M Feb  2 16:17 zr1394_1_s2_R1.fastq.gz
  213M Feb  2 16:16 zr1394_1_s3_R1.fastq.gz
  510M Feb  2 16:20 zr1394_1_s4_R1.fastq.gz
  506M Feb  2 16:20 zr1394_1_s5_R1.fastq.gz
  507M Feb  2 16:22 zr1394_1_s6_R1.fastq.gz
  256M Feb  2 16:20 zr1394_2_s1_R1.fastq.gz
  232M Feb  2 16:20 zr1394_2_s2_R1.fastq.gz
  212M Feb  2 16:22 zr1394_2_s3_R1.fastq.gz
  504M Feb  2 16:26 zr1394_2_s4_R1.fastq.gz
  499M Feb  2 16:26 zr1394_2_s5_R1.fastq.gz
  501M Feb  2 16:26 zr1394_2_s6_R1.fastq.gz
  264M Feb  2 16:25 zr1394_3_s1_R1.fastq.gz
  237M Feb  2 16:25 zr1394_3_s2_R1.fastq.gz
  214M Feb  2 16:28 zr1394_3_s3_R1.fastq.gz
  528M Feb  2 16:32 zr1394_3_s4_R1.fastq.gz
  524M Feb  2 16:32 zr1394_3_s5_R1.fastq.gz
  525M Feb  2 16:33 zr1394_3_s6_R1.fastq.gz
  241M Feb  2 16:29 zr1394_4_s1_R1.fastq.gz
  221M Feb  2 16:31 zr1394_4_s2_R1.fastq.gz
  202M Feb  2 16:32 zr1394_4_s3_R1.fastq.gz
  492M Feb  2 16:37 zr1394_4_s4_R1.fastq.gz
  487M Feb  2 16:38 zr1394_4_s5_R1.fastq.gz
  487M Feb  2 16:38 zr1394_4_s6_R1.fastq.gz
  258M Feb  2 16:36 zr1394_5_s1_R1.fastq.gz
  240M Feb  2 16:36 zr1394_5_s2_R1.fastq.gz
  216M Feb  2 16:38 zr1394_5_s3_R1.fastq.gz
  518M Feb  2 16:42 zr1394_5_s4_R1.fastq.gz
  512M Feb  2 16:43 zr1394_5_s5_R1.fastq.gz
  513M Feb  2 16:44 zr1394_5_s6_R1.fastq.gz
  238M Feb  2 16:41 zr1394_6_s1_R1.fastq.gz
  223M Feb  2 16:41 zr1394_6_s2_R1.fastq.gz
  192M Feb  2 16:44 zr1394_6_s3_R1.fastq.gz
  506M Feb  2 16:47 zr1394_6_s4_R1.fastq.gz
  502M Feb  2 16:48 zr1394_6_s5_R1.fastq.gz
  502M Feb  2 16:49 zr1394_6_s6_R1.fastq.gz
  274M Feb  2 16:47 zr1394_7_s1_R1.fastq.gz
  250M Feb  2 16:47 zr1394_7_s2_R1.fastq.gz
  224M Feb  2 16:49 zr1394_7_s3_R1.fastq.gz
  545M Feb  2 16:53 zr1394_7_s4_R1.fastq.gz
  539M Feb  2 16:53 zr1394_7_s5_R1.fastq.gz
  540M Feb  2 16:54 zr1394_7_s6_R1.fastq.gz
  223M Feb  2 16:52 zr1394_8_s1_R1.fastq.gz
  204M Feb  2 16:52 zr1394_8_s2_R1.fastq.gz
  184M Feb  2 16:54 zr1394_8_s3_R1.fastq.gz
  424M Feb  2 16:58 zr1394_8_s4_R1.fastq.gz
  420M Feb  2 16:58 zr1394_8_s5_R1.fastq.gz
  421M Feb  2 16:59 zr1394_8_s6_R1.fastq.gz
  405M Feb  2 16:59 zr1394_9_s1_R1.fastq.gz
  387M Feb  2 17:00 zr1394_9_s2_R1.fastq.gz
  340M Feb  2 16:56 zr1394_9_s3_R1.fastq.gz
  837M Feb  2 17:09 zr1394_9_s4_R1.fastq.gz
  829M Feb  2 17:10 zr1394_9_s5_R1.fastq.gz
  831M Feb  2 17:09 zr1394_9_s6_R1.fastq.gz

In [17]:

%%bash

ls -1 /Volumes/owl_web/nightingales/O_lurida/20160203_mbdseq/ | wc -l

In [ ]: