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lpantano / mirdeep2_core

Main core scripts for novel mirna discovery from bam files
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Check if the perl PDF::API2 package is correctly installed and all Pathes were set correctly. #4

Open ro6ert opened 6 years ago

ro6ert commented 6 years ago

Hello Lorena,

I had an error message. It said I should contact you through github about the error. The error is pretty self explanatory, but is there a specific environmental variable that I should check to make sure that the perl pdf api is installed other than $PATH?

Best, -Rob

miRDeep2 started at 19:46:26

Starting miRDeep2

Error: Perl PDF::API2 package not found Check if the perl PDF::API2 package is correctly installed and all Pathes were set correctly.

If you used the install.pl script make sure that you started a complete new shell window after installation. If this did not help please restart youer workstation.

lpantano commented 6 years ago

Hi,

sorry about the error. If this running as part of bcbio?

can you fetch the complete command that you are using?

If it is installed through bcbio and using as part, that dependency should work. But it needs to get the PATH correctly set up to find it.

I will try to help more when you send out that information.

Lo

On Tue, Nov 6, 2018 at 2:56 PM ro6ert notifications@github.com wrote:

Hello Lorena,

I had an error message. It said I should contact you through github about the error. The error is pretty self explanatory, but is there a specific environmental variable that I should check to make sure that the perl pdf api is installed other than $PATH?

Best, -Rob

miRDeep2 started at 19:46:26

Starting miRDeep2

Error: Perl PDF::API2 package not found Check if the perl PDF::API2 package is correctly installed and all Pathes were set correctly.

If you used the install.pl script make sure that you started a complete new shell window after installation. If this did not help please restart youer workstation.

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