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Perl error

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# 1  
Old 10-22-2014
Perl error
Code:
  cat "C:\Program Files\BioDiscovery\Nexus 7\Organisms\Human\NCBI Build 37\refseq_genes.txt" |  perl -aF/\\t/ -lne '$F[2]=~/_/ and next; @st=split/\,/,$F[9];@en=split/\,/,$F[10];print join("\t",$F[2],$st[$_],$en[$_],$F[0]) for (0..$#st)' | sort -u > refseq_exons.bed

sort: open failed: -u: No such file or directory

Not sure how to fix the error. Thanks Smilie.
# 2  
Old 10-22-2014
replace sort -u with sort -u
# 3  
Old 10-22-2014
How is the second sort -u different. The changed worked I am just trying to learn. Thank you.
# 4  
Old 10-22-2014
Quote:
Originally Posted by cmccabe
How is the second sort -u different. The changed worked I am just trying to learn. Thank you.
The `-' is not the same that `-'
This User Gave Thanks to Aia For This Post:
cmccabe
# 5  
Old 10-22-2014
Thank you Smilie.
# 6  
Old 10-22-2014
One of those must be some fancy unicode dash or something from a word processing program, not an ASCII dash.

So, never ever use a word processor to make a script file Smilie

Honest mistake though -- I needed a hex dump to tell the difference at all. One is a 1-byte ASCII character. One is a 3-byte UTF-8 thing. (The 0a is a newline.)

Code:
$ echo '–' | hexdump -C
00000000  e2 80 93 0a                                       |....|
00000004
$ echo '-' | hexdump -C
00000000  2d 0a                                             |-.|
00000002
$

Last edited by Corona688; 10-22-2014 at 03:22 PM..
This User Gave Thanks to Corona688 For This Post:
cmccabe
# 7  
Old 10-22-2014
Thank you very much Smilie.
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