How to fix bowtie2-align error: Setting locale failed.

Question

[zhenghanl1020]

I download the source package from the sourceforge site, build bowtie2 by running GNU make. After the software installed, typed the command 'bowtie2', here are the results:

perl: warning: Setting locale failed.
perl: warning: Please check that your locale settings: LANGUAGE = (unset),
LC_ALL = (unset),
LANG = "en_US.iso885915" are supported and installed on your system.
perl: warning: Falling back to the standard locale ("C").
No index, query, or output file specified!
...
(ERR): bowtie2-align exited with value 1

There must something wrong, please tell me.

Answer 1

[Cytosine]

Locale may not be set correctly, but that does not interfere with running your Bowtie2 installation.

This error says it all: No index, query, or output file specified!

Use the options to set the necessary files for Bowtie to run.

You can use the locale-gen program, if you want to set the appropriate locale for your system.

Answer 2

[iraun]

Take a look to this: http://www.linuxquestions.org/questions/showthread.php?p=3540541#post3540541 . I guess the problem becomes from your local environment settings.