87-*1:91+=;28+=16:=:5(7:?-B8?:@;=BBBB336=3?######################################################### @HWUSI-EAS1775_1_1_14406_953 NCTCATATCTGCAAAGAACAGACCGTTCAGTATATACTAACTATGGTGGATGATATGCTGCAGGTAGGTATATTCTTTACTTAACACATTTGGTGACTTCA
Ok I see that I shouldn't be using FASTQ splitter since the fastq file is already split. The sequence name is the same for forward and reverse so nothing to key on to force the split. Need a tool that will assume first sequence is forward and second is reverse. Any suggestions? I can't find anything searching messages. From: Scooter Willis <hwillis@scripps.edu<mailto:hwillis@scripps.edu>> Date: Monday, October 29, 2012 9:16 PM To: "galaxy-dev@lists.bx.psu.edu<mailto:galaxy-dev@lists.bx.psu.edu>" <galaxy-dev@lists.bx.psu.edu<mailto:galaxy-dev@lists.bx.psu.edu>> Subject: [galaxy-dev] Fastq splitter Working with some fastq files that were exported from CLC Genomics Workbench and trying to split them. After running groomer on the files to convert to sanger running splitter and results in 0 split. I have included the first X sequences from the groomer file. Any thoughts on why it isn't splitting? Is it expecting a particular data pattern for the sequence id? The files originated as qseq on casava 1.7 and were converted to fastq using CLC and the reason the sequence identifier is a little different. [cid:F65701C9-A06D-4F15-A281-9DFCC74B8CF2] @HWUSI-EAS1775_1_1_6763_945 NGGGCCCCTCCTGAGCCCCAGCCCAGCCCCTCAGGGTGCTTANATCAAGGAGCCTGCCTGTCTGCATGGACCACACGAAAATCTCAAAGGAGTCCTGCGCC + #33239988222B@BBBBBBBBB@@@@BBB@22@@@@B@@66#3566666@BBBBB@BB@@@@@B@@B@@B@BB@@@B@@@@@;@@@@@;<<:<<@@@@@< @HWUSI-EAS1775_1_1_6763_945 CACCTCTCCACGCCCCACCCCGTTCTCCTGGGTGGCGGGGGATGCGAGCGGTGGGATCGTCTCGGCAGGGGGGCAGGACTCCTTTGGGATTTTCGTGTGGT + B@B0=?:=0?BB######################################################################################### @HWUSI-EAS1775_1_1_10085_933 NACCATGTTAGGCTGGTCTCTTAACTCCTGACCTCAGGTGATNTGCTTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGTGCCCAGCC + #333366666@BBB@BBBBBB@BBB@BB@BBBB@B@B@@@24#4466666BBB@@BBBBB22B@@@@BB@@@@@@@@@B@@BB@@@@@@@<<<<<@@@@@5 @HWUSI-EAS1775_1_1_10085_933 CCTAATTCATCCACAAGCACCAGAGAATGGGCTGGTGCATGCATGAGTATGCTGGCAGTTTCACTTAATTCAACAAAAAATGGACTTTCACCTTAAAAAAA + B::=<9B@?-=7=8+@8@2?91+168@::+5=911B2B:-=:A9:422-,8=42@AB-3BBB3BB=88@@BBBBB?=?==4,+;>BBBB=BB,B3BBBBA# @HWUSI-EAS1775_1_1_12647_946 NCAGGCAGTGCCCCATAATCCCCTGGGTTTTCTGCATCCCCTNAGTGTCGCCACCGGGTCGCACCTGGCAGGTGCCTTGGCTGCAGCCGCGCCCCACTCCC + #211178877@BBBB@BB@B@BBB@B@@BBB@22B@B@B@87#7763666BBBB@@BBBB@BB@B@@@@@:::::82858<<::<@@@@@########### @HWUSI-EAS1775_1_1_12647_946 CACCCAGCAGGCGCTGCAGCGGGACCTGAAGACCCGGGAGAAGGGGGGGGGGGCGGGGGGGGGGGGGGCCGGGCTGCGGCCCAGGCACCCGCCAGGCGAGA + + #2.,.77777B@BBB@@22@@@B@BBBB@B@@@@B@@@@@@B@B@@@@@@@@@@@@B@@@BBBBB@@@8@@@@@@@B22@@@@@@BBB@@@@@@@@B@@@@ @HWUSI-EAS1775_1_1_14406_953 TCTCCCCAAAAATGCTGCTACTGGGAGGGATGCAAAAAAATGAAGTCACCAAATGGGTTAAGTAAAGAATATACCTACCTGCAGCATATCATCCACCATAG + A88?1B><?>BB<B=*;6*;=2=+=/:4'18=@@BBBBBB>BBBB6=28@>BB>B57=BBBB<B<B?><;4*1==5>BB>AB3B31+01:B8@B?BBB8@2 @HWUSI-EAS1775_1_1_15514_936 NAAGTACACAGCTACATCCTCAAAGGTTACCAGCTCCTGAAANAACACGTGCTGGCATGCAATTTCAGGGTGAGGAATGTGAATGGCGGCACAAAAAAAAT + #/2//87777BBBB@BBB@@B@B@@B@@@@@@@@B@B@@@54#2-,1313@BB@BB@B@BB@BB@@@@@@<<<<<<:<<<@@@@@@@@@@@@@@@222220 @HWUSI-EAS1775_1_1_15514_936 TCTATCCTGGACTCCTGTCTCCCTTCCTCCACCCTGGCCTCCCTTCCTCCCTTCCCAAATGGGCCACTTTCACCCCATCCTCAGTGATTTTTTTTGTGCCG + ?61-+:*?:;1;1=8);4:-@,@8ABB8BB,?B<2=,;@8BB<;ABBABBB?BBBBBBBA1'-.+%)5;9414:8@93B>+:.73?+?B?<A@@=302BB# @HWUSI-EAS1775_1_1_16607_936 NGTCTCTCTCCTTTCTGAACAGAGATGAGCCCTAAGATACCTNGAAGATTTTGTTTTTAACCTCACATTAAGGAAAGCACACATCACCTTGAAAGGTTGCA + #111/87787@BBB@@@@B@@@@@@?@@@@@@@@@@B@B@66#6655225@@B222222@@B@B@B@@@@@@@B@@@@@@BB@@@B@@@@@B@@@@@@@@: @HWUSI-EAS1775_1_1_16607_936 TCTGTGCAATGGCACCCTTCTAGGAGGAAGTGTGCAACCTTTCAAGGGGATGTGTGCTTTCCTTAATGGGGGGTTAACAAACACATCTTCCAGGGATTTTA + B38?;=:8;5?B?4?3+3++45;>3@1=;>17*1=4BBB?BBB3>BB+3+;@7;1>=ABBBBBB3BB=-31330=BBBB82.B,?BB@=BB?B########
