Missing dependency issue
Hello all, I'm having an issue with a missing dependency for readline 6.2. When I try to install or repair, I get the following error message: configure: error: in `/vectorbase/web/Galaxy/galaxy/data/galaxy/tmp/tmp-toolshed-mtd3fhemK/readline-6.2': configure: error: cannot compute suffix of object files: cannot compile See `config.log' for more details. I've tried to locate the config.log file without success, so this is all I have to go on. Has anyone else encountered this sort of issue, and if so, how did you solve it? Thanks! -- Scott B. Szakonyi Research Programmer *Center for Research Computing* 107 Information Technology Center Notre Dame, IN 46556 http://crc.nd.edu
Hello Scott I don't have any insight into your specific problem with the readline package, however it might be worth looking for the INSTALLATION.log file from the tool install process. Assuming that this is the iuc version of package_readline_6_2 then you can try looking for it under .../tool_dependencies/readline/6.2/iuc/package_readline_6_2/52d6f646b3b5/ (the final subdirectory corresponds to the version hash so might be different for your installation). If present the INSTALLATION.log file should be in there and hopefully will give you some clues as to what the problem could be. HTH Best wishes Peter On 09/03/16 20:33, Scott Szakonyi wrote:
Hello all,
I'm having an issue with a missing dependency for readline 6.2. When I try to install or repair, I get the following error message:
configure: error: in `/vectorbase/web/Galaxy/galaxy/data/galaxy/tmp/tmp-toolshed-mtd3fhemK/readline-6.2': configure: error: cannot compute suffix of object files: cannot compile See `config.log' for more details.
I've tried to locate the config.log file without success, so this is all I have to go on. Has anyone else encountered this sort of issue, and if so, how did you solve it?
Thanks!
-- Scott B. Szakonyi Research Programmer
*Center for Research Computing* 107 Information Technology Center Notre Dame, IN 46556 http://crc.nd.edu <http://crc.nd.edu/>
___________________________________________________________ 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: https://lists.galaxyproject.org/
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-- Peter Briggs peter.briggs@manchester.ac.uk Bioinformatics Core Facility University of Manchester B.1083 Michael Smith Bldg Tel: (0161) 2751482
Hello Peter, Sadly, when I look in '../Galaxy/shed_tools/ toolshed.g2.bx.psu.edu/repos/iuc/package_readline_6_2/52d6f646b3b5/package_readline_6_2' I don't see an installation log anywhere in the tree. I don't know what is going on... I've always installed via the toolshed, so I don't think I've done anything to mess it up through manual installations or so forth. I'll keep looking, but if you or other folks on the list have additional suggestions I would welcome them. Best, Scott On Thu, Mar 10, 2016 at 7:28 AM, Peter Briggs <peter.briggs@manchester.ac.uk
wrote:
Hello Scott
I don't have any insight into your specific problem with the readline package, however it might be worth looking for the INSTALLATION.log file from the tool install process.
Assuming that this is the iuc version of package_readline_6_2 then you can try looking for it under
.../tool_dependencies/readline/6.2/iuc/package_readline_6_2/52d6f646b3b5/
(the final subdirectory corresponds to the version hash so might be different for your installation).
If present the INSTALLATION.log file should be in there and hopefully will give you some clues as to what the problem could be.
HTH
Best wishes
Peter
On 09/03/16 20:33, Scott Szakonyi wrote:
Hello all,
I'm having an issue with a missing dependency for readline 6.2. When I try to install or repair, I get the following error message:
configure: error: in `/vectorbase/web/Galaxy/galaxy/data/galaxy/tmp/tmp-toolshed-mtd3fhemK/readline-6.2': configure: error: cannot compute suffix of object files: cannot compile See `config.log' for more details.
I've tried to locate the config.log file without success, so this is all I have to go on. Has anyone else encountered this sort of issue, and if so, how did you solve it?
Thanks!
-- Scott B. Szakonyi Research Programmer
*Center for Research Computing* 107 Information Technology Center Notre Dame, IN 46556 http://crc.nd.edu <http://crc.nd.edu/>
___________________________________________________________ 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: https://lists.galaxyproject.org/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
-- Peter Briggs peter.briggs@manchester.ac.uk Bioinformatics Core Facility University of Manchester B.1083 Michael Smith Bldg Tel: (0161) 2751482
-- Scott B. Szakonyi Research Programmer *Center for Research Computing* 107 Information Technology Center Notre Dame, IN 46556 http://crc.nd.edu
Sorry, I was a bit premature. I did find the INSTALLATION.log file, but it only contains the original error message. I can't seem to find a config.log file anywhere. Thanks! Scott On Fri, Mar 11, 2016 at 8:19 AM, Scott Szakonyi <Scott.B.Szakonyi.1@nd.edu> wrote:
Hello Peter,
Sadly, when I look in '../Galaxy/shed_tools/ toolshed.g2.bx.psu.edu/repos/iuc/package_readline_6_2/52d6f646b3b5/package_readline_6_2' I don't see an installation log anywhere in the tree. I don't know what is going on... I've always installed via the toolshed, so I don't think I've done anything to mess it up through manual installations or so forth. I'll keep looking, but if you or other folks on the list have additional suggestions I would welcome them.
Best,
Scott
On Thu, Mar 10, 2016 at 7:28 AM, Peter Briggs < peter.briggs@manchester.ac.uk> wrote:
Hello Scott
I don't have any insight into your specific problem with the readline package, however it might be worth looking for the INSTALLATION.log file from the tool install process.
Assuming that this is the iuc version of package_readline_6_2 then you can try looking for it under
.../tool_dependencies/readline/6.2/iuc/package_readline_6_2/52d6f646b3b5/
(the final subdirectory corresponds to the version hash so might be different for your installation).
If present the INSTALLATION.log file should be in there and hopefully will give you some clues as to what the problem could be.
HTH
Best wishes
Peter
On 09/03/16 20:33, Scott Szakonyi wrote:
Hello all,
I'm having an issue with a missing dependency for readline 6.2. When I try to install or repair, I get the following error message:
configure: error: in `/vectorbase/web/Galaxy/galaxy/data/galaxy/tmp/tmp-toolshed-mtd3fhemK/readline-6.2': configure: error: cannot compute suffix of object files: cannot compile See `config.log' for more details.
I've tried to locate the config.log file without success, so this is all I have to go on. Has anyone else encountered this sort of issue, and if so, how did you solve it?
Thanks!
-- Scott B. Szakonyi Research Programmer
*Center for Research Computing* 107 Information Technology Center Notre Dame, IN 46556 http://crc.nd.edu <http://crc.nd.edu/>
___________________________________________________________ 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: https://lists.galaxyproject.org/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
-- Peter Briggs peter.briggs@manchester.ac.uk Bioinformatics Core Facility University of Manchester B.1083 Michael Smith Bldg Tel: (0161) 2751482
-- Scott B. Szakonyi Research Programmer
*Center for Research Computing* 107 Information Technology Center Notre Dame, IN 46556 http://crc.nd.edu
-- Scott B. Szakonyi Research Programmer *Center for Research Computing* 107 Information Technology Center Notre Dame, IN 46556 http://crc.nd.edu
Scott, I'm not sure what's going on here, but maybe it'd be useful to try to run the build by hand to see what's going on here? cd <galaxy_dependencies>/readline/6.2/iuc/package_readline_6_2/52d6f646b3b5/ ./configure On Fri, Mar 11, 2016 at 8:25 AM, Scott Szakonyi <Scott.B.Szakonyi.1@nd.edu> wrote:
Sorry, I was a bit premature. I did find the INSTALLATION.log file, but it only contains the original error message. I can't seem to find a config.log file anywhere.
Thanks!
Scott
On Fri, Mar 11, 2016 at 8:19 AM, Scott Szakonyi <Scott.B.Szakonyi.1@nd.edu
wrote:
Hello Peter,
Sadly, when I look in '../Galaxy/shed_tools/ toolshed.g2.bx.psu.edu/repos/iuc/package_readline_6_2/52d6f646b3b5/package_readline_6_2' I don't see an installation log anywhere in the tree. I don't know what is going on... I've always installed via the toolshed, so I don't think I've done anything to mess it up through manual installations or so forth. I'll keep looking, but if you or other folks on the list have additional suggestions I would welcome them.
Best,
Scott
On Thu, Mar 10, 2016 at 7:28 AM, Peter Briggs < peter.briggs@manchester.ac.uk> wrote:
Hello Scott
I don't have any insight into your specific problem with the readline package, however it might be worth looking for the INSTALLATION.log file from the tool install process.
Assuming that this is the iuc version of package_readline_6_2 then you can try looking for it under
.../tool_dependencies/readline/6.2/iuc/package_readline_6_2/52d6f646b3b5/
(the final subdirectory corresponds to the version hash so might be different for your installation).
If present the INSTALLATION.log file should be in there and hopefully will give you some clues as to what the problem could be.
HTH
Best wishes
Peter
On 09/03/16 20:33, Scott Szakonyi wrote:
Hello all,
I'm having an issue with a missing dependency for readline 6.2. When I try to install or repair, I get the following error message:
configure: error: in `/vectorbase/web/Galaxy/galaxy/data/galaxy/tmp/tmp-toolshed-mtd3fhemK/readline-6.2': configure: error: cannot compute suffix of object files: cannot compile See `config.log' for more details.
I've tried to locate the config.log file without success, so this is all I have to go on. Has anyone else encountered this sort of issue, and if so, how did you solve it?
Thanks!
-- Scott B. Szakonyi Research Programmer
*Center for Research Computing* 107 Information Technology Center Notre Dame, IN 46556 http://crc.nd.edu <http://crc.nd.edu/>
___________________________________________________________ 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: https://lists.galaxyproject.org/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
-- Peter Briggs peter.briggs@manchester.ac.uk Bioinformatics Core Facility University of Manchester B.1083 Michael Smith Bldg Tel: (0161) 2751482
-- Scott B. Szakonyi Research Programmer
*Center for Research Computing* 107 Information Technology Center Notre Dame, IN 46556 http://crc.nd.edu
-- Scott B. Szakonyi Research Programmer
*Center for Research Computing* 107 Information Technology Center Notre Dame, IN 46556 http://crc.nd.edu
___________________________________________________________ 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: https://lists.galaxyproject.org/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
participants (3)
-
Dannon Baker -
Peter Briggs -
Scott Szakonyi