Sadly,

     <action type="shell_command">./configure --disable-gui 
--prefix=$INSTALL_DIR</action>

yeilds install error:

     /bin/sh: ./configure: No such file or directory

But file must be there since previous git step is carried out ok:
...
#############################################
git reset --hard 1819482db93bf0025c2588b5264cc0ec8c61029c
STDOUT
HEAD is now at 1819482 Added gitignore

#############################################
git reset --hard 1819482db93bf0025c2588b5264cc0ec8c61029c
STDERR

#############################################
./configure --disable-gui 
--prefix=/usr/local/galaxy/shared/tool_dependency/ffp-phylogeny/0.3.19_1819482db93bf0025c2588b5264cc0ec8c61029c/ddooley/ffp_phylogeny/4e213eee0fef
STDOUT

#############################################
./configure --disable-gui 
--prefix=/usr/local/galaxy/shared/tool_dependency/ffp-phylogeny/0.3.19_1819482db93bf0025c2588b5264cc0ec8c61029c/ddooley/ffp_phylogeny/4e213eee0fef
STDERR
/bin/sh: ./configure: No such file or directory
#############################################

argh!

d.
________________________________________
From: Aaron Petkau [aaron.pet...@gmail.com]
Sent: Friday, August 01, 2014 11:47 AM
To: Dooley, Damion
Cc: galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] Toolshed tool_dependency.xml git archive configure 
issue

Hey Damion,

You should be able to do ./configure --disable-gui ... to get it to work (that 
is, make sure the full path to the configure command is given).  At least I 
think that's probably what's going on.

Aaron


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