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I updated to plugins git 1.3.0 and git-client 1.0.4, then updated the git-client to the 1.0.5 test snapshot, then restarted Jenkins and re-triggered an affected build. The test failed, though differently than before (output below).
Note: after this, I did have the option to downgrade git-client to 1.0.3, just like 1.2.0 for git. I clicked both, then restarted, but again the git-client never actually downgraded (and I lost the option to downgrade that one after the reboot). Strange. I manually downgraded it to restore normal functionality.
Commencing build of Revision 2c09adc94ac7245ae8dacdaac82227443ce0d7bc (mybranch)
Checking out Revision 2c09adc94ac7245ae8dacdaac82227443ce0d7bc (mybranch)
FATAL: Could not checkout 2c09adc94ac7245ae8dacdaac82227443ce0d7bc
hudson.plugins.git.GitException: Could not checkout 2c09adc94ac7245ae8dacdaac82227443ce0d7bc
at org.jenkinsci.plugins.gitclient.JGitAPIImpl.checkout(JGitAPIImpl.java:68)
at hudson.plugins.git.GitAPI.checkout(GitAPI.java:208)
at hudson.plugins.git.GitSCM.checkout(GitSCM.java:1273)
at hudson.plugins.git.GitSCM.access$1100(GitSCM.java:57)
at hudson.plugins.git.GitSCM$4.invoke(GitSCM.java:1232)
at hudson.plugins.git.GitSCM$4.invoke(GitSCM.java:1208)
at hudson.FilePath.act(FilePath.java:865)
at hudson.FilePath.act(FilePath.java:838)
at hudson.plugins.git.GitSCM.checkout(GitSCM.java:1208)
at hudson.model.AbstractProject.checkout(AbstractProject.java:1353)
at hudson.model.AbstractBuild$AbstractBuildExecution.defaultCheckout(AbstractBuild.java:683)
at jenkins.scm.SCMCheckoutStrategy.checkout(SCMCheckoutStrategy.java:88)
at hudson.model.AbstractBuild$AbstractBuildExecution.run(AbstractBuild.java:588)
at hudson.model.Run.execute(Run.java:1567)
at hudson.model.FreeStyleBuild.run(FreeStyleBuild.java:46)
at hudson.model.ResourceController.execute(ResourceController.java:88)
at hudson.model.Executor.run(Executor.java:237)
Caused by: org.eclipse.jgit.api.errors.CheckoutConflictException: Checkout conflict with file: Cannot delete file: apt/spec/fixtures/modules/apt/.gitignore
at org.eclipse.jgit.api.CheckoutCommand.call(CheckoutCommand.java:246)
at org.jenkinsci.plugins.gitclient.JGitAPIImpl.checkout(JGitAPIImpl.java:64)
... 16 more
Caused by: org.eclipse.jgit.errors.CheckoutConflictException: Checkout conflict with file: Cannot delete file: apt/spec/fixtures/modules/apt/.gitignore
at org.eclipse.jgit.dircache.DirCacheCheckout.cleanUpConflicts(DirCacheCheckout.java:1011)
at org.eclipse.jgit.dircache.DirCacheCheckout.doCheckout(DirCacheCheckout.java:413)
at org.eclipse.jgit.dircache.DirCacheCheckout.checkout(DirCacheCheckout.java:391)
at org.eclipse.jgit.api.CheckoutCommand.call(CheckoutCommand.java:242)
... 17 more