error with GC_skew

[BJCampbelllab]

Hi-
I'm new to iRep, but am really eager to use it and see my results! I get this error when I run gc_skew:
-bash-4.2$ gc_skew -f CB_Spr15_L08_bin.56.fa
File "/usr/bin/gc_skew", line 49
print('%s: Too Short' % (name), file=sys.stderr)
^
SyntaxError: invalid syntax

Any help/suggestions would be appreciated!

[BJCampbelllab]

Okay, I see that the program needs matlab. I don't have it (it is expensive, I believe). Any workaround for that?

[christophertbrown]

Hi, iRep does not require Matlab or any software that needs to be purchased. It looks to me like you were trying to run gc_skew with python 2.7 instead of python 3. I recommend using pyenv to install python 3 and to manage different python versions. Hope this helps! Chris

…

On Jun 4, 2017, at 9:41 AM, BJCampbelllab ***@***.***> wrote: Okay, I see that the program needs matlab. I don't have it (it is expensive, I believe). Any workaround for that? — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or mute the thread. On Jun 4, 2017, at 8:25 AM, BJCampbelllab ***@***.***> wrote: Hi- I'm new to iRep, but am really eager to use it and see my results! I get this error when I run gc_skew: -bash-4.2$ gc_skew -f CB_Spr15_L08_bin.56.fa File "/usr/bin/gc_skew", line 49 print('%s: Too Short' % (name), file=sys.stderr) ^ SyntaxError: invalid syntax Any help/suggestions would be appreciated! — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or mute the thread.

[BJCampbelllab]

Thanks! I'll let you know if I have any more issues.

Sent from my iPhone On Jun 5, 2017, at 12:56 PM, christophertbrown <notifications@github.com<mailto:notifications@github.com>> wrote: Hi, iRep does not require Matlab or any software that needs to be purchased. It looks to me like you were trying to run gc_skew with python 2.7 instead of python 3. I recommend using pyenv to install python 3 and to manage different python versions. Hope this helps! Chris

On Jun 4, 2017, at 9:41 AM, BJCampbelllab ***@***.******@***.***>> wrote: Okay, I see that the program needs matlab. I don't have it (it is expensive, I believe). Any workaround for that? — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or mute the thread. On Jun 4, 2017, at 8:25 AM, BJCampbelllab ***@***.******@***.***>> wrote: Hi- I'm new to iRep, but am really eager to use it and see my results! I get this error when I run gc_skew: -bash-4.2$ gc_skew -f CB_Spr15_L08_bin.56.fa File "/usr/bin/gc_skew", line 49 print('%s: Too Short' % (name), file=sys.stderr) ^ SyntaxError: invalid syntax Any help/suggestions would be appreciated! — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or mute the thread.

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