fisher-test.pl errors - missing twotailed.pm

[GoogleCodeExporter]

What steps will reproduce the problem?
1. created mpileup successfully
2. created syn file successfully
3. fisher-test.pl fails (stops on line 9 and 10)

What is the expected output? What do you see instead?
fisher-test.pl fails (stops on line 9 and 10). 

What version of the product are you using? On what operating system?
Popoolation2

Please provide any additional information below.

Receive the following error messages:

"Can't locate Text/NSP/Measures/2D/Fisher/twotailed.pm in @INC <@INC contains 
C:Popoolation2 C:Popoolation2/Modules C:/Perl64/site/lib C:/Perl64/lib > at 
C:/Popoolation2/Modules/FET.pm line 10
BEGIN failed--compilation aborted at C:/Popoolation/Modules/FET.pm line 10"

and 

"Compilation failed in require at C:/Popoolation2/fisher-test.pl line 9
BEGIN failed--compilation aborted at C:/Popoolation2/fisher-test.pl"

I discovered that twotailed.pm was not located in the Popoolation2 directories, 
but found it at 
http://cpansearch.perl.org/src/TPEDERSE/Text-NSP-1.15/lib/Text/NSP/Measures/2D/F
isher2/twotailed.pm .  I placed twotail.pm into the Modules directory of 
Popoolation2 as well as Perl/site/lib

I still receive the same errors. 

Any help to resolve this will be much appreciated!

Original issue reported on code.google.com by bsc6...@gmail.com on 28 Aug 2013 at 3:13

[GoogleCodeExporter]

I also encountered this issue. My guess is that this module has been deprecated 
in the latest version of Perl, but I am not at all knowledgeable about Perl so 
that may be wrong. Hopefully it is not a problem to be using these modules 
still. 

I guess you can put the whole NSP module into your directory to fix this. I 
added just the bits that popoolation needs for the Fisher's Exact Test, and 
that worked. I traced back the scripts required by first adding 
Text/NSP/Measures/2D/Fisher/twotailed.pm to the directory, looking at the next 
error message, then adding Fisher.pm in the Text/NSP/Measures/2D/ directory as 
required, and so on. All the source code for those scripts is here 
http://search.cpan.org/~tpederse/Text-NSP/

Original comment by pip.grif...@gmail.com on 22 Jan 2014 at 1:12

[GoogleCodeExporter]

hi guys, 
not sure if I understand, correctly, but this module needs to be installed 
manually as it never was part of the Perl standard distribution (more details 
also in the manual)
A simple guide for installing perl modules: 
http://www.cpan.org/modules/INSTALL.html
cheers ro

Original comment by RoKof...@gmail.com on 27 Jan 2014 at 3:49

[GoogleCodeExporter]

I meet the same problem. I have installed manually the Perl. But it is not work.
Could you tell us how to improve it?
Thanks,
Fuyou

Original comment by fufu...@gmail.com on 8 Dec 2014 at 11:38

[ShrimpNPrawn]

Hello, This solution worked here :

sudo perl -MCPAN -e 'shell'
get Text::NSP::Measures::2D::Fisher::twotailed/ install Text::NSP::Measures::2D::Fisher::twotailed/

Thats it, good luck, Prawn