how to setup miRDeep2 on osx 10.10 (Yosemite)
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5.2 years ago
khblack • 0

 

Hello I want use miRDeep2 on my mac (Yoseimite).
So I downloaded miRDeep2 on https://www.mdc-berlin.de/8551903/en/ 

I open iterm and change dir to Download/mirdeep2
type ./install.pl

but there are error message like this :

+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Use of uninitialized value $new in pattern match (m//) at ./install.pl line 20.
making backup of .bashrc,.bash_profile and .cshrc and removing all entries of mirdeep in those files
~/.bashrc backup is ~/.bashrc_1454562646
~/.bash_profile backup is ~/.bash_profile_1454562646
file /Users/XXXX/.cshrc.bak not found

Error:
    no gcc compiler installed. Please install a gcc compiler
+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++

but I already installed gcc...;;
how can I solve this problem??

miRDeep2 miRNA • 1.4k views
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Cross-posted and partially answered: http://seqanswers.com/forums/showthread.php?t=66045

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Entering edit mode
5.2 years ago
jth ▴ 190

Hi khblack,

Assuming you installed gcc yourself, can you make sure that location of your gcc is in your PATH variable by typing "echo $PATH" in your terminal? If you see any problem you can add the location to your .bash_profile file and re-open a terminal window. 

To avoid any complications, you can always download Xcode Developer Tools (a good how-to can be found here.) as well.

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Entering edit mode
5.2 years ago

Have you got Xcode installed and have you opened it to configure?

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