[mira_talk] 4 won't run!
- From: <Theo.Allnutt@xxxxxxxx>
- To: <mira_talk@xxxxxxxxxxxxx>
- Date: Wed, 9 Apr 2014 07:05:32 +0000
Every time I run Mira 4, I get a file not found error:
Looking for files named in data ...Data
'/path/is/definitely/correct/paired1.fastq' was not found (neither as file nor
as directory) or led to a read error.
What could be wrong? Its driving me mad, have tried with several different
files.
Thanks.
Manifest file:
-----------------------------------
project = paired1
job = genome,denovo,accurate
readgroup = Paired1
autopairing
data = /path/is/definitely/correct/paired1.fastq
technology = 454
------------------------------------
My fastq file looks like this (have checked, it has only \n returns):
-----------------------------------------
@IOFHIWU01A6LKJ/1
TATTTAGTCATATCTCCGATAAACAACACGTCCGTATCTGAAAAATTAGACGCCGTTTCAGGATAAAAATAATTGCTGCCTACGTTGCGGCCGCCAGTAATGTATGCAACATTGTCAACAATAAACAATTTGTTGTGCATGCGCGAATTCAATCGGTTAAAATCAGCCAAAAATTGTGGGTAATACAATAAGCGTGAACGATTGGCCACAGGATTAAAGACTTTGACTTCTATGTTTGGATGCTGATTTAACAACATCACATCAACAATGTCTGATTTAGTACCATAATCATCCAGCAAAATACGTATCTTTACGCCACGATCGGCCGCATTTTTTAATCACCAATTAAAACCTTGGACGAAAAATCATTACTGTAAATATAG
+
IIHHHIIIIIIIIIIIIIIIHHHIIIIIIIIIIIIIIIII?????IIIIIIIIIIHHHIIIIII;;;;;IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIHHHIIIHHHIIIIIIIIIIIIIIIIIIIIIIIIIII@@@@IIIIII>>???IIII???IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIHHHIIIHHHIIIIIHHHIIGGGIIIIIIIIIHHHIIIHHHIIIIIIIIIIIIIIIIIIII???I?=??IIIIIIIIIIIIIIA@@=;/;;IIII599;HIIIIIIIIEEE=744700//00>>2BBEEIIIIAAAAIIIIII;;744666FBB00226220008/=EE
@IOFHIWU01A6LKJ/2
CTGCCTTTGTATGTTACATCCTGGCACATGTTCAAAACAGACATGCACATACCATAATTCTTGCCATCTGAATCATCGTGATATCCGA
+
EEEEEDDDC=CAEEEEEEEEEEEEEEEEEE@@@77777-@@CCAACCAACAEEEEEEE@7449CEEC@@@AEEEEEE<<<<C@@<<<<
@IOFHIWU01DCPNE
GCTTTGGAAAGCGGCAAATCGTGGTGTGCAGGTGCGCATACTCATCGATGATAATGGCTTAGATTCGGATTTTTCAGACATTATCACACTAGATTCACACCCAAATATTGAGGTTAAGATTTTTAATCCCTACAAAAACCGCTCTAAAATATTGCGTTATCCAGAAATGGTGTATGACTTCAATCGTATCAACCATCGTATGCACAACAAAATCTTTGTAGTCGATGATATTGCACCTATTATCGGCGGGCGCAATGTCGCAGATGACTATTTTGATAATAATACACATCTAAATTTTACTGATACTGATGTGGTGTTTATCGGCGATGTGGTCAAAGCCGCGACAAAGAGCTTTATGTCTTATTGGCACTATGATCGTTCTATACCCGCGACACTTTTGCCTTCAAAGCGATCAATGAAAAATTAATTTCAAAGAAATAAAGGCAATTTCACAAGAAATCCAAGCCCAGCCTAGTCGTAT
+
IIHHHHH666HIIIIHHHIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII==???IIIIIIIIIIIIIIIIIIIIIIIIIHHHHHHIIIIIIIIIIIIII?????IIIHHHIII;;;;;HHIIIII;;;;H>HHIIIIIIIIIIIHHHIIIIIIIIIIIIIIIIIIIIIIIIIHHHIIIIIIIIIIIIICCCBHHCCCDAIIIIIIIIIIIIIIIIIIIIIIIIIIHHBBBIIH???HIIIIIIIIIIIIE5555?C555IIIIIIIIIIIIHHHCCCCIIIIIIIIIIIIIIIIIIH???CIIIIIIIIIIID;555?EIIIICCCCHIIIIHHGH7??HHIIIIIIIIIIIIHHHIIFFFFEA9447?6EE@@E::=>;;;;;7?CBIIFIIIIIII54444<<++444A<==@<<:<///AAACC?666<;@@@==;<<<EAA???@@A@6554:?@@4
@etc...
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