Re: [galaxy-dev] [galaxy-user] Cannot get rid of custom build error
Hi Jim, I am going to post your question over to the galaxy-dev mailing list (is best for local/cloud instance questions). Would you be able to confirm which version of Galaxy you are running? The latest version of the distribution? http://wiki.g2.bx.psu.edu/News%20Briefs/2011_10_25 "upgrade: % hg pull -u -r 338ead4737ba" Please send your reply as a "reply-all" that includes the galaxy-dev mailing list, but omits the galaxy-user mailing list. Thanks for the additional information, Jen Galaxy team On 11/2/11 4:04 AM, James Vincent wrote:
Hello,
I've tried to create a custom build (starting from the trackster page) and clearly made some mistake. I get a NoConverterException error which is almost certainly my fault putting something wrong in. However, now the Custom Builds page shows this error and I cannot make it go away.
I have a local install, have killed and restarted, logged in and out, but still this error stays. I cannot try to enter another custom build because there is nothing on the page except this error. Does anyone kow how to get rid of this? Any help in getting around this error are appreciated.
Jim ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists, please use the interface at:
-- Jennifer Jackson http://usegalaxy.org http://galaxyproject.org/wiki/Support
Hello Devs, I can confirm I am using the latest build: galaxy@monolith:~/galaxy-dist$ hg pull -u -r 338ead4737ba pulling from https://bitbucket.org/galaxy/galaxy-dist/ searching for changes no changes found galaxy@monolith:~/galaxy-dist$ Here is a copy of the error message that shows when I click on Custom Builds under the User main menu. Oddly, when on this page I cannot kill the galaxy main process. I start with ./run.sh --reload. Giving a control-c won't kill it until I leave that error page. Hope that helps. Error Traceback: View as: Interactive | Text | XML (full) ⇝ NoConverterException: "Conversion from 'fasta' to 'len' not possible" URL: http://monolith.uvm.edu:8080/user/dbkeys Module weberror.evalexception.middleware:364 in respond view
app_iter = self.application(environ, detect_start_response) Module paste.debug.prints:98 in __call__ view environ, self.app) Module paste.wsgilib:539 in intercept_output view app_iter = application(environ, replacement_start_response) Module paste.recursive:80 in __call__ view return self.application(environ, start_response) Module paste.httpexceptions:632 in __call__ view return self.application(environ, start_response) Module galaxy.web.framework.base:160 in __call__ view body = method( trans, **kwargs ) Module galaxy.web.framework:86 in decorator view return func( self, trans, *args, **kwargs ) Module galaxy.web.controllers.user:1217 in dbkeys view len_dataset = fasta_dataset.get_converted_dataset( trans, "len" ) Module galaxy.model:913 in get_converted_dataset view raise NoConverterException("Conversion from '%s' to '%s' not possible" % (self.extension, target_ext) ) NoConverterException: "Conversion from 'fasta' to 'len' not possible"
Extra Features
Display the lines of code near each part of the traceback Show a debug prompt to allow you to directly debug the code at the traceback Re-GET Page test build.
Here is a copy of the error message that shows when I click on Custom Builds under the User main menu: On Wed, Nov 2, 2011 at 10:35 AM, Jennifer Jackson <jen@bx.psu.edu> wrote:
Hi Jim,
I am going to post your question over to the galaxy-dev mailing list (is best for local/cloud instance questions).
Would you be able to confirm which version of Galaxy you are running? The latest version of the distribution?
http://wiki.g2.bx.psu.edu/News%20Briefs/2011_10_25 "upgrade: % hg pull -u -r 338ead4737ba"
Please send your reply as a "reply-all" that includes the galaxy-dev mailing list, but omits the galaxy-user mailing list.
Thanks for the additional information,
Jen Galaxy team
On 11/2/11 4:04 AM, James Vincent wrote:
Hello,
I've tried to create a custom build (starting from the trackster page) and clearly made some mistake. I get a NoConverterException error which is almost certainly my fault putting something wrong in. However, now the Custom Builds page shows this error and I cannot make it go away.
I have a local install, have killed and restarted, logged in and out, but still this error stays. I cannot try to enter another custom build because there is nothing on the page except this error. Does anyone kow how to get rid of this? Any help in getting around this error are appreciated.
Jim ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists, please use the interface at:
-- Jennifer Jackson http://usegalaxy.org http://galaxyproject.org/wiki/Support
James, do you have an entry for the "fasta_to_len" convertor in your datatypes_conf.xml? If not, you might want to update your config to include those entries from the sample. Thanks! -- jt (composed on my phone) On Nov 2, 2011, at 11:58 AM, James Vincent <jjv5@uvm.edu> wrote:
Hello Devs,
I can confirm I am using the latest build:
galaxy@monolith:~/galaxy-dist$ hg pull -u -r 338ead4737ba pulling from https://bitbucket.org/galaxy/galaxy-dist/ searching for changes no changes found galaxy@monolith:~/galaxy-dist$
Here is a copy of the error message that shows when I click on Custom Builds under the User main menu. Oddly, when on this page I cannot kill the galaxy main process. I start with ./run.sh --reload. Giving a control-c won't kill it until I leave that error page. Hope that helps.
Error Traceback: View as: Interactive | Text | XML (full) ⇝ NoConverterException: "Conversion from 'fasta' to 'len' not possible" URL: http://monolith.uvm.edu:8080/user/dbkeys Module weberror.evalexception.middleware:364 in respond view
app_iter = self.application(environ, detect_start_response) Module paste.debug.prints:98 in __call__ view environ, self.app) Module paste.wsgilib:539 in intercept_output view app_iter = application(environ, replacement_start_response) Module paste.recursive:80 in __call__ view return self.application(environ, start_response) Module paste.httpexceptions:632 in __call__ view return self.application(environ, start_response) Module galaxy.web.framework.base:160 in __call__ view body = method( trans, **kwargs ) Module galaxy.web.framework:86 in decorator view return func( self, trans, *args, **kwargs ) Module galaxy.web.controllers.user:1217 in dbkeys view len_dataset = fasta_dataset.get_converted_dataset( trans, "len" ) Module galaxy.model:913 in get_converted_dataset view raise NoConverterException("Conversion from '%s' to '%s' not possible" % (self.extension, target_ext) ) NoConverterException: "Conversion from 'fasta' to 'len' not possible"
Extra Features
Display the lines of code near each part of the traceback Show a debug prompt to allow you to directly debug the code at the traceback Re-GET Page test build.
Here is a copy of the error message that shows when I click on Custom Builds under the User main menu:
On Wed, Nov 2, 2011 at 10:35 AM, Jennifer Jackson <jen@bx.psu.edu> wrote:
Hi Jim,
I am going to post your question over to the galaxy-dev mailing list (is best for local/cloud instance questions).
Would you be able to confirm which version of Galaxy you are running? The latest version of the distribution?
http://wiki.g2.bx.psu.edu/News%20Briefs/2011_10_25 "upgrade: % hg pull -u -r 338ead4737ba"
Please send your reply as a "reply-all" that includes the galaxy-dev mailing list, but omits the galaxy-user mailing list.
Thanks for the additional information,
Jen Galaxy team
On 11/2/11 4:04 AM, James Vincent wrote:
Hello,
I've tried to create a custom build (starting from the trackster page) and clearly made some mistake. I get a NoConverterException error which is almost certainly my fault putting something wrong in. However, now the Custom Builds page shows this error and I cannot make it go away.
I have a local install, have killed and restarted, logged in and out, but still this error stays. I cannot try to enter another custom build because there is nothing on the page except this error. Does anyone kow how to get rid of this? Any help in getting around this error are appreciated.
Jim ___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists, please use the interface at:
-- Jennifer Jackson http://usegalaxy.org http://galaxyproject.org/wiki/Support
___________________________________________________________ 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:
participants (3)
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James Taylor -
James Vincent -
Jennifer Jackson