force fastaFromBED to print to screen

[GoogleCodeExporter]

What steps will reproduce the problem?
1. run fastaFromBED as instructed
2. cannot remove -fo or give it an empty line to force it to print results to 
the screen
3.

What is the expected output? What do you see instead?
the expected outcome is that the results are read into a file. However, that is 
not what I want

What version of the product are you using? On what operating system?
I am using BEDtools on a linux sever. 

Please provide any additional information below.

Original issue reported on code.google.com by zephr...@gmail.com on 2 Sep 2011 at 3:07

[GoogleCodeExporter]

Are you using version 2.13.0 from the Google Code site, and not from the Github 
repository?  I ask because it works fine for me using the GC version 2.13.0.  
There were some bugs in the GitHub repository that I resolved before 
yesterday's official release of 2.13. Heres what I get:

bin/fastaFromBed -fi ~/data/genomes/hg18/hg18.fa -bed simrep.bed -fo stdout | 
head
>chr1:10000-10468
ccaggggccagcactgctcgaaatgtacagcatttctctttgtaacaggattattagcctgctgtgcccggggaaaacat
gcagcacagtgcatctcgagtcagcaggattttgacggcttctaacaaaatcttgtagacaagatggagctatgggggtt
ggaggagagaacatataggaaaaatcagagccaaatgaaccacagccccaaagggcacagttgaacaatggactgattcc
agccttgcacggagggatctggcagagtccatccagttcattcaacacctggttagaaaactggggccagcacacagggg
aagggtaagctggtttcatgatcgaatcaaggctcagacaatttttaaaggccagagggtagactgcaatcaccaagatg
aaatttacaaggaacaaatgtgaagcccaacatttaggttttaaaaatcaagcgtataaatacagaag

Original comment by aaronqui...@gmail.com on 2 Sep 2011 at 9:56

[GoogleCodeExporter]

Original comment by aaronqui...@gmail.com on 20 Sep 2011 at 12:44

• Changed state: Fixed