I found another prerequisite not listed in the documentation. I think this is an Apollo issue as you guys do reference bower, but if it belongs in JBrowse, just let me know and I'll post it over there.
$ ./apollo run-local
Defining custom 'build' task when using the standard Gradle lifecycle plugins has been deprecated and is scheduled to be removed in Gradle 3.0
final JBrowse settings [git:[url:https://github.com/gmod/jbrowse, tag:1.12.2-apollo, alwaysPull:false, alwaysRecheck:false], plugins:[WebApollo:[included:true], RegexSequenceSearch:[included:true], HideTrackLabels:[included:true]]]
final plugins [WebApollo:[included:true], RegexSequenceSearch:[included:true], HideTrackLabels:[included:true]]
Copying apollo plugin
handling jbrowse release [git:[url:https://github.com/gmod/jbrowse, tag:1.12.2-apollo, alwaysPull:false, alwaysRecheck:false], plugins:[WebApollo:[included:true], RegexSequenceSearch:[included:true], HideTrackLabels:[included:true]]]
handling jbrowse [git:[url:https://github.com/gmod/jbrowse, tag:1.12.2-apollo, alwaysPull:false, alwaysRecheck:false], plugins:[WebApollo:[included:true], RegexSequenceSearch:[included:true], HideTrackLabels:[included:true]]]
:evaluateJBrowseConfigs UP-TO-DATE
:installJBrowse
installing jbrowse [git:[url:https://github.com/gmod/jbrowse, tag:1.12.2-apollo, alwaysPull:false, alwaysRecheck:false], plugins:[WebApollo:[included:true], RegexSequenceSearch:[included:true], HideTrackLabels:[included:true]]]
Cloning: https://github.com/gmod/jbrowse into jbrowse-download.
using bower to install: gmod/jbrowse#1.12.2-apollo
:installJBrowse FAILED
FAILURE: Build failed with an exception.
* What went wrong:
Execution failed for task ':installJBrowse'.
> A problem occurred starting process 'command 'bower''
* Try:
Run with --stacktrace option to get the stack trace. Run with --info or --debug option to get more log output.
BUILD FAILED
Total time: 8.663 secs
I found another prerequisite not listed in the documentation. I think this is an Apollo issue as you guys do reference bower, but if it belongs in JBrowse, just let me know and I'll post it over there.