Re: [galaxy-dev] MarkupSafe egg missing? e.args[1].key != e.args[0].key
On Tue, Nov 18, 2014 at 5:51 PM, Nate Coraor wrote: > Peter, > > Unless you've made modifications to Galaxy that depend on external > libraries, switching to a virtualenv for the server itself should be > pretty safe. Tools themselves can still run without using the/any > virtualenv, if desired. > > --nate OK - that sounds more straightforward than I had feared - but I will cross that bridge as needed ;) Thanks, Peter ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] MarkupSafe egg missing? e.args[1].key != e.args[0].key
Peter, Unless you've made modifications to Galaxy that depend on external libraries, switching to a virtualenv for the server itself should be pretty safe. Tools themselves can still run without using the/any virtualenv, if desired. --nate On Tue, Nov 18, 2014 at 8:24 AM, Peter Cock wrote: > On Nov 18, 2014 7:26 AM, "John Chilton" wrote: >> >> I will admit to not actually understanding Galaxy's dependency management >> but I think virtualenv is exactly the advice people who do understand it >> give >> http://dev.list.galaxyproject.org/Local-installation-problem-td4662627.html. >> It is a widely used tool precisely designed to solve such problems - I think >> it is the best way to go. I don't know why it would not be appropriate for >> existing installations - I think it is in fact somethimg of a "best >> practice" for existing installations. > > Our existing installation is not using a virtual env, and I fear switching to > that could be disruptive. > >> Certainly that error message should be more helpful but I am not sure we >> should do anything to address this beyond that - do you have a particular >> idea in mind? > > Not show the IndexError exception? :P > > Here the user should be told something about a conflict between > MarkupSafe and paramiko (assuming this is the real problem). > > Peter > ___ > Please keep all replies on the list by using "reply all" > in your mail client. To manage your subscriptions to this > and other Galaxy lists, please use the interface at: > http://lists.bx.psu.edu/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/mailinglists/ ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] MarkupSafe egg missing? e.args[1].key != e.args[0].key
On Tue, Nov 18, 2014 at 1:24 PM, Peter Cock wrote: > On Nov 18, 2014 7:26 AM, "John Chilton" wrote: >> >> I will admit to not actually understanding Galaxy's dependency management >> but I think virtualenv is exactly the advice people who do understand it >> give >> http://dev.list.galaxyproject.org/Local-installation-problem-td4662627.html. >> It is a widely used tool precisely designed to solve such problems - I think >> it is the best way to go. I don't know why it would not be appropriate for >> existing installations - I think it is in fact somethimg of a "best >> practice" for existing installations. > > Our existing installation is not using a virtual env, and I fear switching to > that could be disruptive. Getting back to TravisCI, using a virtual env wasn't too painful: https://github.com/peterjc/pico_galaxy/commit/26489a65a9cd60f9d055488d003346eab87941b0 I can now get back to tweaking the tests I was working on :) Thanks, Peter ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] MarkupSafe egg missing? e.args[1].key != e.args[0].key
On Nov 18, 2014 7:26 AM, "John Chilton" wrote: > > I will admit to not actually understanding Galaxy's dependency management > but I think virtualenv is exactly the advice people who do understand it > give > http://dev.list.galaxyproject.org/Local-installation-problem-td4662627.html. > It is a widely used tool precisely designed to solve such problems - I think > it is the best way to go. I don't know why it would not be appropriate for > existing installations - I think it is in fact somethimg of a "best > practice" for existing installations. Our existing installation is not using a virtual env, and I fear switching to that could be disruptive. > Certainly that error message should be more helpful but I am not sure we > should do anything to address this beyond that - do you have a particular > idea in mind? Not show the IndexError exception? :P Here the user should be told something about a conflict between MarkupSafe and paramiko (assuming this is the real problem). Peter ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] MarkupSafe egg missing? e.args[1].key != e.args[0].key
Oops forgot to cc the list. On Nov 18, 2014 7:26 AM, "John Chilton" wrote: > I will admit to not actually understanding Galaxy's dependency management > but I think virtualenv is exactly the advice people who do understand it > give > http://dev.list.galaxyproject.org/Local-installation-problem-td4662627.html. > It is a widely used tool precisely designed to solve such problems - I > think it is the best way to go. I don't know why it would not be > appropriate for existing installations - I think it is in fact somethimg of > a "best practice" for existing installations. > > Certainly that error message should be more helpful but I am not sure we > should do anything to address this beyond that - do you have a particular > idea in mind? > On Nov 18, 2014 5:49 AM, "Peter Cock" wrote: > >> On Mon, Nov 17, 2014 at 7:23 PM, John Chilton >> wrote: >> > Ummm... I think it is that the VM started shipping with an >> > incompatible paramkio. >> > >> > [...] >> > >> > Anyway - planemo's TravisCI integration tests Galaxy in a virtualenv >> > and it works fine [...] >> >> That's a useful workaround, but a virtualenv is not viable for existing >> Galaxy installations - which may also come to have this problem if >> their system copy of paramiko is updated? >> >> I'm not familiar with paramiko or markupsafe, but if there is a conflict >> it would be good to have a direct fix. >> >> Peter >> > ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] MarkupSafe egg missing? e.args[1].key != e.args[0].key
On Mon, Nov 17, 2014 at 7:23 PM, John Chilton wrote: > Ummm... I think it is that the VM started shipping with an > incompatible paramkio. > > [...] > > Anyway - planemo's TravisCI integration tests Galaxy in a virtualenv > and it works fine [...] That's a useful workaround, but a virtualenv is not viable for existing Galaxy installations - which may also come to have this problem if their system copy of paramiko is updated? I'm not familiar with paramiko or markupsafe, but if there is a conflict it would be good to have a direct fix. Peter ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] MarkupSafe egg missing? e.args[1].key != e.args[0].key
On 17 November 2014 11:23, John Chilton wrote: > Ummm... I think it is that the VM started shipping with an > incompatible paramkio. Saket I think you were using -m like it were > -c? > >> python -m "import string" # what you had > /usr/bin/python: No module named import string >> python -c "import string >> python -m "string" >> > Indeed. Thanks for pointing that out! https://travis-ci.org/saketkc/galaxy_tools/builds/41283066#L60 Saket > Anyway - planemo's TravisCI integration tests Galaxy in a virtualenv > and it works fine (reran today > https://travis-ci.org/jmchilton/bwa-mem/builds/37353814) - so I > suggest creating a virtualenv and testing Galaxy inside of that. > > Hope this helps. > > -John > > > On Mon, Nov 17, 2014 at 12:52 PM, Saket Choudhary wrote: >> I have had the same issue. A little debugging here: >> https://travis-ci.org/saketkc/galaxy_tools/builds/41209515#L84 >> >> I first thought that there was a conflict with system installed >> paramiko, but it is not: >> https://travis-ci.org/saketkc/galaxy_tools/builds/41210153#L60 >> >> A clean install of galaxy-central worked fine on Mac, I am yet to test >> this on a local linux installation though. >> >> >> On 17 November 2014 03:57, Peter Cock wrote: >>> Hello all, >>> >>> There looks to be an egg problem with the latest galaxy-central, >>> here are excepts from a failed Galaxy install on my TravisCI test >>> setup, >>> https://travis-ci.org/peterjc/pico_galaxy/builds/41233860 >>> >>> Here's another project build with the same error: >>> https://travis-ci.org/peterjc/galaxy_blast/builds/41235899 >>> >>> $ ./run.sh --stop-daemon || true >>> Initializing config/migrated_tools_conf.xml from >>> migrated_tools_conf.xml.sample >>> ... >>> Initializing static/welcome.html from welcome.html.sample >>> Some eggs are out of date, attempting to fetch... >>> Fetched http://eggs.galaxyproject.org/Mako/Mako-0.4.1-py2.7.egg >>> Fetched http://eggs.galaxyproject.org/importlib/importlib-1.0.3-py2.7.egg >>> Fetched >>> http://eggs.galaxyproject.org/pysam/pysam-0.4.2_kanwei_b10f6e722e9a-py2.7-linux-x86_64-ucs4.egg >>> Fetched http://eggs.galaxyproject.org/ordereddict/ordereddict-1.1-py2.7.egg >>> Fetched http://eggs.galaxyproject.org/Fabric/Fabric-1.7.0-py2.7.egg >>> Fetched http://eggs.galaxyproject.org/Babel/Babel-1.3-py2.7.egg >>> Fetched http://eggs.galaxyproject.org/Whoosh/Whoosh-0.3.18-py2.7.egg >>> Fetched http://eggs.galaxyproject.org/Parsley/Parsley-1.1-py2.7.egg >>> Fetched >>> http://eggs.galaxyproject.org/Cheetah/Cheetah-2.2.2-py2.7-linux-x86_64-ucs4.egg >>> Traceback (most recent call last): >>> File "./scripts/fetch_eggs.py", line 46, in >>> c.resolve() # Only fetch eggs required by the config >>> File >>> "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", >>> line 347, in resolve >>> egg.resolve() >>> File >>> "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", >>> line 192, in resolve >>> if e.args[1].key != e.args[0].key: >>> IndexError: tuple index out of range >>> Fetch failed. >>> No PID file exists in paster.pid >>> >>> >>> $ python scripts/fetch_eggs.py >>> Warning: MarkupSafe (a dependent egg of Mako) cannot be fetched >>> Traceback (most recent call last): >>> File "scripts/fetch_eggs.py", line 46, in >>> c.resolve() # Only fetch eggs required by the config >>> File >>> "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", >>> line 347, in resolve >>> egg.resolve() >>> File >>> "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", >>> line 192, in resolve >>> if e.args[1].key != e.args[0].key: >>> IndexError: tuple index out of range >>> >>> The command "python scripts/fetch_eggs.py" failed and exited with 1 >>> >>> Looking at http://eggs.galaxyproject.org/MarkupSafe/ for >>> Python 2.7 and Linux x86_64 there is a ucs4 egg: >>> >>> MarkupSafe-0.12-py2.7-linux-x86_64-ucs4.egg09-Jun-2011 03:09 >>> 30724 >>> >>> So, why is this failing? Not I am not explicitly installing MakupSafe >>> (so I do not expect there to be a conflicting version installed). >>> >>> Also it would seem there is a bug in the resolve method assuming that >>> e.arg will always have (at least) two entries? >>> >>> Thanks, >>> >>> Peter >>> ___ >>> Please keep all replies on the list by using "reply all" >>> in your mail client. To manage your subscriptions to this >>> and other Galaxy lists, please use the interface at: >>> http://lists.bx.psu.edu/ >>> >>> To search Galaxy mailing lists use the unified search at: >>> http://galaxyproject.org/search/mailinglists/ >> ___ >> Please keep all replies on the list by using "reply all" >> in your mail client. To manage your subscriptions to this >> and other Galaxy lists, please use the i
Re: [galaxy-dev] MarkupSafe egg missing? e.args[1].key != e.args[0].key
Ummm... I think it is that the VM started shipping with an incompatible paramkio. Saket I think you were using -m like it were -c? > python -m "import string" # what you had /usr/bin/python: No module named import string > python -c "import string > python -m "string" > Anyway - planemo's TravisCI integration tests Galaxy in a virtualenv and it works fine (reran today https://travis-ci.org/jmchilton/bwa-mem/builds/37353814) - so I suggest creating a virtualenv and testing Galaxy inside of that. Hope this helps. -John On Mon, Nov 17, 2014 at 12:52 PM, Saket Choudhary wrote: > I have had the same issue. A little debugging here: > https://travis-ci.org/saketkc/galaxy_tools/builds/41209515#L84 > > I first thought that there was a conflict with system installed > paramiko, but it is not: > https://travis-ci.org/saketkc/galaxy_tools/builds/41210153#L60 > > A clean install of galaxy-central worked fine on Mac, I am yet to test > this on a local linux installation though. > > > On 17 November 2014 03:57, Peter Cock wrote: >> Hello all, >> >> There looks to be an egg problem with the latest galaxy-central, >> here are excepts from a failed Galaxy install on my TravisCI test >> setup, >> https://travis-ci.org/peterjc/pico_galaxy/builds/41233860 >> >> Here's another project build with the same error: >> https://travis-ci.org/peterjc/galaxy_blast/builds/41235899 >> >> $ ./run.sh --stop-daemon || true >> Initializing config/migrated_tools_conf.xml from >> migrated_tools_conf.xml.sample >> ... >> Initializing static/welcome.html from welcome.html.sample >> Some eggs are out of date, attempting to fetch... >> Fetched http://eggs.galaxyproject.org/Mako/Mako-0.4.1-py2.7.egg >> Fetched http://eggs.galaxyproject.org/importlib/importlib-1.0.3-py2.7.egg >> Fetched >> http://eggs.galaxyproject.org/pysam/pysam-0.4.2_kanwei_b10f6e722e9a-py2.7-linux-x86_64-ucs4.egg >> Fetched http://eggs.galaxyproject.org/ordereddict/ordereddict-1.1-py2.7.egg >> Fetched http://eggs.galaxyproject.org/Fabric/Fabric-1.7.0-py2.7.egg >> Fetched http://eggs.galaxyproject.org/Babel/Babel-1.3-py2.7.egg >> Fetched http://eggs.galaxyproject.org/Whoosh/Whoosh-0.3.18-py2.7.egg >> Fetched http://eggs.galaxyproject.org/Parsley/Parsley-1.1-py2.7.egg >> Fetched >> http://eggs.galaxyproject.org/Cheetah/Cheetah-2.2.2-py2.7-linux-x86_64-ucs4.egg >> Traceback (most recent call last): >> File "./scripts/fetch_eggs.py", line 46, in >> c.resolve() # Only fetch eggs required by the config >> File >> "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", >> line 347, in resolve >> egg.resolve() >> File >> "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", >> line 192, in resolve >> if e.args[1].key != e.args[0].key: >> IndexError: tuple index out of range >> Fetch failed. >> No PID file exists in paster.pid >> >> >> $ python scripts/fetch_eggs.py >> Warning: MarkupSafe (a dependent egg of Mako) cannot be fetched >> Traceback (most recent call last): >> File "scripts/fetch_eggs.py", line 46, in >> c.resolve() # Only fetch eggs required by the config >> File >> "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", >> line 347, in resolve >> egg.resolve() >> File >> "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", >> line 192, in resolve >> if e.args[1].key != e.args[0].key: >> IndexError: tuple index out of range >> >> The command "python scripts/fetch_eggs.py" failed and exited with 1 >> >> Looking at http://eggs.galaxyproject.org/MarkupSafe/ for >> Python 2.7 and Linux x86_64 there is a ucs4 egg: >> >> MarkupSafe-0.12-py2.7-linux-x86_64-ucs4.egg09-Jun-2011 03:09 >> 30724 >> >> So, why is this failing? Not I am not explicitly installing MakupSafe >> (so I do not expect there to be a conflicting version installed). >> >> Also it would seem there is a bug in the resolve method assuming that >> e.arg will always have (at least) two entries? >> >> Thanks, >> >> Peter >> ___ >> Please keep all replies on the list by using "reply all" >> in your mail client. To manage your subscriptions to this >> and other Galaxy lists, please use the interface at: >> http://lists.bx.psu.edu/ >> >> To search Galaxy mailing lists use the unified search at: >> http://galaxyproject.org/search/mailinglists/ > ___ > Please keep all replies on the list by using "reply all" > in your mail client. To manage your subscriptions to this > and other Galaxy lists, please use the interface at: > http://lists.bx.psu.edu/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/mailinglists/ ___ Please keep all replies on the list by using "reply all" in your mail clien
Re: [galaxy-dev] MarkupSafe egg missing? e.args[1].key != e.args[0].key
I have had the same issue. A little debugging here: https://travis-ci.org/saketkc/galaxy_tools/builds/41209515#L84 I first thought that there was a conflict with system installed paramiko, but it is not: https://travis-ci.org/saketkc/galaxy_tools/builds/41210153#L60 A clean install of galaxy-central worked fine on Mac, I am yet to test this on a local linux installation though. On 17 November 2014 03:57, Peter Cock wrote: > Hello all, > > There looks to be an egg problem with the latest galaxy-central, > here are excepts from a failed Galaxy install on my TravisCI test > setup, > https://travis-ci.org/peterjc/pico_galaxy/builds/41233860 > > Here's another project build with the same error: > https://travis-ci.org/peterjc/galaxy_blast/builds/41235899 > > $ ./run.sh --stop-daemon || true > Initializing config/migrated_tools_conf.xml from > migrated_tools_conf.xml.sample > ... > Initializing static/welcome.html from welcome.html.sample > Some eggs are out of date, attempting to fetch... > Fetched http://eggs.galaxyproject.org/Mako/Mako-0.4.1-py2.7.egg > Fetched http://eggs.galaxyproject.org/importlib/importlib-1.0.3-py2.7.egg > Fetched > http://eggs.galaxyproject.org/pysam/pysam-0.4.2_kanwei_b10f6e722e9a-py2.7-linux-x86_64-ucs4.egg > Fetched http://eggs.galaxyproject.org/ordereddict/ordereddict-1.1-py2.7.egg > Fetched http://eggs.galaxyproject.org/Fabric/Fabric-1.7.0-py2.7.egg > Fetched http://eggs.galaxyproject.org/Babel/Babel-1.3-py2.7.egg > Fetched http://eggs.galaxyproject.org/Whoosh/Whoosh-0.3.18-py2.7.egg > Fetched http://eggs.galaxyproject.org/Parsley/Parsley-1.1-py2.7.egg > Fetched > http://eggs.galaxyproject.org/Cheetah/Cheetah-2.2.2-py2.7-linux-x86_64-ucs4.egg > Traceback (most recent call last): > File "./scripts/fetch_eggs.py", line 46, in > c.resolve() # Only fetch eggs required by the config > File > "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", > line 347, in resolve > egg.resolve() > File > "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", > line 192, in resolve > if e.args[1].key != e.args[0].key: > IndexError: tuple index out of range > Fetch failed. > No PID file exists in paster.pid > > > $ python scripts/fetch_eggs.py > Warning: MarkupSafe (a dependent egg of Mako) cannot be fetched > Traceback (most recent call last): > File "scripts/fetch_eggs.py", line 46, in > c.resolve() # Only fetch eggs required by the config > File > "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", > line 347, in resolve > egg.resolve() > File > "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", > line 192, in resolve > if e.args[1].key != e.args[0].key: > IndexError: tuple index out of range > > The command "python scripts/fetch_eggs.py" failed and exited with 1 > > Looking at http://eggs.galaxyproject.org/MarkupSafe/ for > Python 2.7 and Linux x86_64 there is a ucs4 egg: > > MarkupSafe-0.12-py2.7-linux-x86_64-ucs4.egg09-Jun-2011 03:09 > 30724 > > So, why is this failing? Not I am not explicitly installing MakupSafe > (so I do not expect there to be a conflicting version installed). > > Also it would seem there is a bug in the resolve method assuming that > e.arg will always have (at least) two entries? > > Thanks, > > Peter > ___ > Please keep all replies on the list by using "reply all" > in your mail client. To manage your subscriptions to this > and other Galaxy lists, please use the interface at: > http://lists.bx.psu.edu/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/mailinglists/ ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
[galaxy-dev] MarkupSafe egg missing? e.args[1].key != e.args[0].key
Hello all, There looks to be an egg problem with the latest galaxy-central, here are excepts from a failed Galaxy install on my TravisCI test setup, https://travis-ci.org/peterjc/pico_galaxy/builds/41233860 Here's another project build with the same error: https://travis-ci.org/peterjc/galaxy_blast/builds/41235899 $ ./run.sh --stop-daemon || true Initializing config/migrated_tools_conf.xml from migrated_tools_conf.xml.sample ... Initializing static/welcome.html from welcome.html.sample Some eggs are out of date, attempting to fetch... Fetched http://eggs.galaxyproject.org/Mako/Mako-0.4.1-py2.7.egg Fetched http://eggs.galaxyproject.org/importlib/importlib-1.0.3-py2.7.egg Fetched http://eggs.galaxyproject.org/pysam/pysam-0.4.2_kanwei_b10f6e722e9a-py2.7-linux-x86_64-ucs4.egg Fetched http://eggs.galaxyproject.org/ordereddict/ordereddict-1.1-py2.7.egg Fetched http://eggs.galaxyproject.org/Fabric/Fabric-1.7.0-py2.7.egg Fetched http://eggs.galaxyproject.org/Babel/Babel-1.3-py2.7.egg Fetched http://eggs.galaxyproject.org/Whoosh/Whoosh-0.3.18-py2.7.egg Fetched http://eggs.galaxyproject.org/Parsley/Parsley-1.1-py2.7.egg Fetched http://eggs.galaxyproject.org/Cheetah/Cheetah-2.2.2-py2.7-linux-x86_64-ucs4.egg Traceback (most recent call last): File "./scripts/fetch_eggs.py", line 46, in c.resolve() # Only fetch eggs required by the config File "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", line 347, in resolve egg.resolve() File "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", line 192, in resolve if e.args[1].key != e.args[0].key: IndexError: tuple index out of range Fetch failed. No PID file exists in paster.pid $ python scripts/fetch_eggs.py Warning: MarkupSafe (a dependent egg of Mako) cannot be fetched Traceback (most recent call last): File "scripts/fetch_eggs.py", line 46, in c.resolve() # Only fetch eggs required by the config File "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", line 347, in resolve egg.resolve() File "/home/travis/build/peterjc/pico_galaxy/galaxy-central-master/lib/galaxy/eggs/__init__.py", line 192, in resolve if e.args[1].key != e.args[0].key: IndexError: tuple index out of range The command "python scripts/fetch_eggs.py" failed and exited with 1 Looking at http://eggs.galaxyproject.org/MarkupSafe/ for Python 2.7 and Linux x86_64 there is a ucs4 egg: MarkupSafe-0.12-py2.7-linux-x86_64-ucs4.egg09-Jun-2011 03:09 30724 So, why is this failing? Not I am not explicitly installing MakupSafe (so I do not expect there to be a conflicting version installed). Also it would seem there is a bug in the resolve method assuming that e.arg will always have (at least) two entries? Thanks, Peter ___ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
