I have cgit builds, 1 that uses the git submodule and 1 that uses a fast snapshot download of git to build cgit.

Because the snapshot download is untarred into the same (submodule) directory, a checkout of a new fails.

This seems to have changed somewhere right at or after the 1.500 release because before it worked fine.

log:

Started by an SCM change
Building in workspace /var/lib/jenkins/workspace/cgit_upstream_get-git_master
Checkout:cgit_upstream_get-git_master / /var/lib/jenkins/workspace/cgit_upstream_get-git_master - hudson.remoting.LocalChannel@77ed71cb
Using strategy: Default
Last Built Revision: Revision e1e0e038fd0fee3fe10524d7466deab03e78deb5 (origin/master)
Fetching changes from 1 remote Git repository
Pruning obsolete local branches
Commencing build of Revision b60e6bff75719a5fb0df970bac3be6b2726cf73a (origin/master)
Checking out Revision b60e6bff75719a5fb0df970bac3be6b2726cf73a (origin/master)
Cleaning workspace
FATAL: org.eclipse.jgit.api.errors.CheckoutConflictException: Checkout conflict with file: Cannot delete file: git/.depend
hudson.plugins.git.GitException: org.eclipse.jgit.api.errors.CheckoutConflictException: Checkout conflict with file: Cannot delete file: git/.depend
at org.jenkinsci.plugins.gitclient.JGitAPIImpl.clean(JGitAPIImpl.java:310)
at hudson.plugins.git.GitAPI.clean(GitAPI.java:248)
at hudson.plugins.git.GitSCM$4.invoke(GitSCM.java:1213)
at hudson.plugins.git.GitSCM$4.invoke(GitSCM.java:1196)
at hudson.FilePath.act(FilePath.java:865)
at hudson.FilePath.act(FilePath.java:838)
at hudson.plugins.git.GitSCM.checkout(GitSCM.java:1196)
at hudson.model.AbstractProject.checkout(AbstractProject.java:1364)
at hudson.model.AbstractBuild$AbstractBuildExecution.defaultCheckout(AbstractBuild.java:670)
at jenkins.scm.SCMCheckoutStrategy.checkout(SCMCheckoutStrategy.java:88)
at hudson.model.AbstractBuild$AbstractBuildExecution.run(AbstractBuild.java:575)
at hudson.model.Run.execute(Run.java:1575)
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: git/.depend
at org.eclipse.jgit.api.ResetCommand.checkoutIndex(ResetCommand.java:361)
at org.eclipse.jgit.api.ResetCommand.call(ResetCommand.java:204)
at org.jenkinsci.plugins.gitclient.JGitAPIImpl.clean(JGitAPIImpl.java:304)
... 14 more
Caused by: org.eclipse.jgit.errors.CheckoutConflictException: Checkout conflict with file: Cannot delete file: git/.depend
at org.eclipse.jgit.dircache.DirCacheCheckout.cleanUpConflicts(DirCacheCheckout.java:873)
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.ResetCommand.checkoutIndex(ResetCommand.java:359)
... 16 more