Hi Dave,

I made changes giving the suggestions of Ross, I got a different error and
that gave me insight as to what was going on.  I uploaded new xml:

<?xml version="1.0"?>
<tool_dependency>
    <package name="requests" version="1.2.3">
        <install version="1.0">
            <actions>
                <action
type="download_by_url">http://pypi.python.org/packages/source/r/requests/re
quests-1.2.3.tar.gz</action>
                <action
type="make_directory">$INSTALL_DIR/lib/python</action>
                <action type="shell_command">export
PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
                python setup.py install --home $INSTALL_DIR
--install-scripts $INSTALL_DIR/bin</action>
                <action type="set_environment">
                    <environment_variable name="PYTHONPATH"
action="append_to">$INSTALL_DIR/lib/python</environment_variable>
                    <environment_variable name="PATH"
action="prepend_to">$INSTALL_DIR/bin</environment_variable>
                </action>
                
            </actions>
        </install>
        <readme>
        </readme>
    </package>
</tool_dependency>



And this worked for me.   I'm thinking you may have downloaded after I
made the changes.




-Curt




On 8/21/13 6:01 PM, "Dave Bouvier" <d...@bx.psu.edu> wrote:

>Curt,
>
>I tried installing the ingtest repository on a local instance of Galaxy,
>and the requests python module installed without errors. Which revision
>of Galaxy are you trying to install this repository into, and what kind
>of environment are you running on that system?
>
>  --Dave B.

Try moving the <action
type="download_by_url">http://pypi.python.org/packages/source/r/requests/re
quests-1.2.3.tar.gz</action>

line so it's the one before
<action type="shell_command">python setup.py install --home $INSTALL_DIR
--install-scripts $INSTALL_DIR/bin</action>


I think I've been bitten by this - it seems download_by_url changes the
current path but only temporarily so you need to run setup.py immediately
as the next step?
If this works, please confirm to the entire list - I'm sending this to you
just in case I'm full of it :)



On Thu, Aug 22, 2013 at 9:12 AM, Curt Palm <cp...@ingenuity.com> wrote:

I've just created a repository  in the sandbox and have been trying to
test the installation of  a dependency my tool needs.  The tool needs the
python module "requests"  and I've written code. I get an error:
STDERR
python: can't open file 'setup.py': [Errno 2] No such file or directory

I've modeled my code on examples I've found in the tool shed.   I've
replaced the requests module with other python  modules and these are
installed ok.   I can also  download and  manually install requests with
"python setup.py install"

Any suggestions as to what I may be doing wrong?







-- 
Ross Lazarus MBBS MPH;
Head, Medical Bioinformatics, BakerIDI; Tel: +61 385321444
http://scholar.google.com/citations?hl=en&user=UCUuEM4AAAAJ




>
>On 2013-08-21 19:12, Curt Palm wrote:
>> I've just created a repository  in the sandbox and have been trying to
>>test the installation of  a dependency my tool needs.  The tool needs
>>the python module "requests"  and I've written code. I get an error:
>> STDERR
>> python: can't open file 'setup.py': [Errno 2] No such file or directory
>>
>> I've modeled my code on examples I've found in the tool shed.   I've
>>replaced the requests module with other python  modules and these are
>>installed ok.   I can also  download and  manually install requests with
>> "python setup.py install"
>>
>> Any suggestions as to what I may be doing wrong?
>>
>> tool_dependencies.xml:
>>
>> <?xml version="1.0"?>
>> <tool_dependency>
>>      <package name="requests" version="1.2.3">
>>          <install version="1.0">
>>              <actions>
>>                  <action
>>type="download_by_url">http://pypi.python.org/packages/source/r/requests/
>>requests-1.2.3.tar.gz</action>
>>                  <action
>>type="make_directory">$INSTALL_DIR/lib/python</action>
>>                  <action type="make_directory">$INSTALL_DIR/bin</action>
>>                  <action type="set_environment">
>>                      <environment_variable name="PYTHONPATH"
>>action="append_to">$INSTALL_DIR/lib/python</environment_variable>
>>                      <environment_variable name="PATH"
>>action="prepend_to">$INSTALL_DIR/bin</environment_variable>
>>                  </action>
>>                  <action type="shell_command">python setup.py install
>>--home $INSTALL_DIR --install-scripts $INSTALL_DIR/bin</action>
>>              </actions>
>>          </install>
>>          <readme>
>>          </readme>
>>      </package>
>> </tool_dependency>
>>
>>
>> ingTest.xml:
>>
>> <tool id="ingTest" name="ingTest" version="1.0">
>> <description>Testing Tool Shed</description>
>>    <requirements>
>>         <requirement type="package"
>>version="1.2.3">requests</requirement>
>>     </requirements>
>>
>>
>>     <command interpreter="python">
>>
>>      </command>
>>
>>      <inputs>
>>
>>
>>      </inputs>
>>      <outputs>
>>
>>      </outputs>
>>      <help>
>>
>> .. class:: infomark
>>
>>
>>
>>
>>      </help>
>> </tool>
>>
>>
>>
>> Thanks,
>>
>> -Curt
>> Curt Palm
>> Data Engineer
>> ________________________________________
>> INGENUITY SYSTEMS | www.ingenuity.com
>> 1700 Seaport Blvd., 3rd Floor | Redwood City, CA 94063
>> 650.381.5084
>>
>>
>> ___________________________________________________________
>> Please keep all replies on the list by using "reply all"
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>>
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>>


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