nav[aria-label="Primary Navigation"] { padding: 0; & ul { list-style: none; width: 100%; display: flex; flex-direction: row; justify-content: start; align-items: start; gap: 30px; padding: 0; & li { margin: 0; } & ul li { list-style: none; } } }

Repository index failed due to error (malloc)...on a GIT respository

Jonathan Belang

I have a couple of repositories that are getting the same error. It appears that Fisheye does not like something about a .doc file that it thinks is not a Word file, but possibly a Rich Text Format file. I have put in an exclude on the entire folder, as well as all items with a .doc extension.

Here is the error information:

Repository index failed due to error com.cenqua.fisheye.rep.RepositoryClientException: com.atlassian.fisheye.dvcs.handler.DvcsProcessException: Error while communicating with VCS: com.atlassian.fisheye.dvcs.handler.DvcsProcessException: Error while communicating with VCS: com.atlassian.utils.process.ProcessException: While executing: "D:\RoRPrograms\Git\bin\git.exe whatchanged --always --reverse --date-order -m --no-abbrev --no-renames e80a314e0f115de6bd84f4fa31f0edf5686162cd..af2fe82d2733eb22a745bbabd4eaef71d25ce1df --pretty=format:C:%H%nP:%P%nA:%aN%nE:%aE%nR:%cN%nF:%cE%nD:%at%nS:%s%nB:%b%n@@fe_body_end@@ " in [D:\FisheyeData\var\cache\ImageProcessing\clone] com.atlassian.utils.process.ProcessException: com.atlassian.fisheye.dvcs.handler.DvcsProcessRuntimeException: com.atlassian.fisheye.dvcs.handler.DvcsProcessException: Error while communicating with VCS: d:\TEMP/eFtzMa_Version 6 Eclipse Build and Release Procedure.doc is not a Word Document. It is probably a Rich Text Format file d:\TEMP/eFtzMa_Version 6 Eclipse Build and Release Procedure.doc is not a Word Document. fatal: Out of memory, malloc failed (tried to allocate 310979025 bytes) com.atlassian.fisheye.dvcs.handler.DvcsProcessRuntimeException: com.atlassian.fisheye.dvcs.handler.DvcsProcessException: Error while communicating with VCS: d:\TEMP/eFtzMa_Version 6 Eclipse Build and Release Procedure.doc is not a Word Document. It is probably a Rich Text Format file d:\TEMP/eFtzMa_Version 6 Eclipse Build and Release Procedure.doc is not a Word Document. fatal: Out of memory, malloc failed (tried to allocate 310979025 bytes) com.atlassian.fisheye.dvcs.handler.DvcsProcessException: Error while communicating with VCS: d:\TEMP/eFtzMa_Version 6 Eclipse Build and Release Procedure.doc is not a Word Document. It is probably a Rich Text Format file d:\TEMP/eFtzMa_Version 6 Eclipse Build and Release Procedure.doc is not a Word Document. fatal: Out of memory, malloc failed (tried to allocate 310979025 bytes) com.atlassian.utils.process.ProcessException: While executing: "D:\RoRPrograms\Git\bin\git.exe diff --no-renames --no-abbrev --full-index -U0 8c22f07f8570d334940c9705161799eef15aada7..a16db74f1f9ab724dcd82c646510c779ee5fbfbd " in [D:\FisheyeData\var\cache\ImageProcessing\clone] com.atlassian.utils.process.ProcessException: Non-zero exit code: 128

Accepted answers

All comments

Piotr Swiecicki

Hi @Jonathan Belanger,

It seems like the error is coming from antiword library (see http://repo.or.cz/w/antiword.git/blob/HEAD:/main_u.c#l185), as a result of running

"D:\RoRPrograms\Git\bin\git.exe diff --no-renames --no-abbrev --full-index -U0 8c22f07f8570d334940c9705161799eef15aada7..a16db74f1f9ab724dcd82c646510c779ee5fbfbd "

command in the D:\FisheyeData\var\cache\ImageProcessing\clone folder.

Can you try running the same command from Windows prompt and see if you get the same error?

Do you have any git extensions installed on your machine? Can you run

git config --list

and attach the output (ensure no sensitive data is attached, e.g. your emails etc.)

Finally, if running command locally bring the same output, can you try running same command with --no-textconv option to see if that helps? I mean

"D:\RoRPrograms\Git\bin\git.exe diff --no-textconv --no-renames --no-abbrev --full-index -U0 8c22f07f8570d334940c9705161799eef15aada7..a16db74f1f9ab724dcd82c646510c779ee5fbfbd "

Regards,

Jonathan Belang

This is the result of the command run on the Crucible server:

\FisheyeData\var\cache\ImageProcessing\clone>D:\RoRPrograms\Git\bin
\git.exe diff --no-renames --no-abbrev --full-index -U0 8c22f07f8570d33
4940c9705161799eef15aada7..a16db74f1f9ab724dcd82c646510c779ee5fbfbd
WARNING: terminal is not fully functional
diff --git a/.gitignore b/.gitignore
index
2f2d8f7019e20d88dfa4797dd002233a1235c3ef..0db20818ab1e644f1598af496df5bca9c6b34f5e
100644
--- a/.gitignore
+++ b/.gitignore
@ InstallUtil.InstallLog
-*.o
+CaptureConsoleUnitTest.opensdf
+#Ignore help temp files
+*.shfbproj_*
@ InstallUtil.InstallLog
+#Ignore 3rdParty
+/ek/capture/imaging/common/3rdParty
+#Ignore image files
+*.raw
+*.dcm
+#Ignore dll files
+*.dll
+#Ignore DATA
+/ek/capture/imaging/RibSuppression/Data
+#Ignore auto generated html document
+/ek/capture/imaging/*/*/*/html
+#Ignore mcl files
+/ek/capture/imaging/RibSuppression/*/mcl
:

At that point it scrolls through all of the diffs, at some point during the
scroll, the same error from Crucible/Fisheye does reappear in the text.

Result of git config --list:

core.symlinks=false
core.autocrlf=true
color.diff=auto
color.status=auto
color.branch=auto
color.interactive=true
pack.packsizelimit=2g
help.format=html
http.sslcainfo=/bin/curl-ca-bundle.crt
sendemail.smtpserver=/bin/msmtp.exe
diff.astextplain.textconv=astextplain
rebase.autosquash=true
core.repositoryformatversion=0
core.filemode=false
core.bare=true
core.symlinks=false
core.ignorecase=true
core.hidedotfiles=dotGitOnly
remote.origin.url=ssh://Git@git01:29419/repo.git

When changing the command to include --no-textconv, I did NOT see the error
message pop up during the diff scroll.

Piotr Swiecicki

Seems like this option: diff.astextplain.textconv=astextplain causes the trouble. Can you find it in your ~/.gitconfig file and remove it please, then try again? I hope that would help. I've raised an improvement issue https://jira.atlassian.com/browse/FE-5638 to have FishEye ignoring such extension, but in general I would advise to keep standard git client configuration for the user FishEye is run on behalf of. Hope that helps, Piotr

Matt Preall

I'm working with Jon to solve this issue. If I remove the lines [diff "astextplain"] textconv = astextplain From the gitconfig file, it crashes because that format is used to diff many different text file types. This is the suggested configuration for .doc conversions everywhere I've looked online as well. When I try to set .doc/.DOC files to diff as binary in the .gitattributes file, I get the following error, which looks similar to the previous one, but this time it does not have any additional information about what is causing the crash: Repository index failed due to error com.cenqua.fisheye.rep.RepositoryClientException: com.atlassian.fisheye.dvcs.handler.DvcsProcessException: Error while communicating with VCS: com.atlassian.fisheye.dvcs.handler.DvcsProcessException: Error while communicating with VCS: com.atlassian.utils.process.ProcessException: While executing: "D:\RoRPrograms\Git\bin\git.exe whatchanged --always --reverse --date-order -m --no-abbrev --no-renames 6f9d51d6f7568916460bd9c1d69c007ec2cb8419..5740552331105b662d40f87fc3c0c8ff8275ff6c --pretty=format:C:%H%nP:%P%nA:%aN%nE:%aE%nR:%cN%nF:%cE%nD:%at%nS:%s%nB:%b%n@@fe_body_end@@ " in [D:\FisheyeData\var\cache\ImageProcessing\clone] com.atlassian.utils.process.ProcessException: com.atlassian.fisheye.dvcs.handler.DvcsProcessRuntimeException: com.atlassian.fisheye.dvcs.handler.DvcsProcessException: Error while communicating with VCS: fatal: Out of memory, malloc failed (tried to allocate 310979025 bytes) com.atlassian.fisheye.dvcs.handler.DvcsProcessRuntimeException: com.atlassian.fisheye.dvcs.handler.DvcsProcessException: Error while communicating with VCS: fatal: Out of memory, malloc failed (tried to allocate 310979025 bytes) com.atlassian.fisheye.dvcs.handler.DvcsProcessException: Error while communicating with VCS: fatal: Out of memory, malloc failed (tried to allocate 310979025 bytes) com.atlassian.utils.process.ProcessException: While executing: "D:\RoRPrograms\Git\bin\git.exe diff --no-renames --no-abbrev --full-index -U0 8c22f07f8570d334940c9705161799eef15aada7..a16db74f1f9ab724dcd82c646510c779ee5fbfbd " in [D:\FisheyeData\var\cache\ImageProcessing\clone] com.atlassian.utils.process.ProcessException: Non-zero exit code: 128 I've been trying to figure out how to modify the syntax of the git diff call to add no-textconv, but I don't see where that is set. Thank you for the help.

Piotr Swiecicki

Seems like textconv option is still in effect, although you removed it from the configuration as explained. Can you remove whole ~/.gitconfig file as a temporary solution and see if that helps? Ideally you shouldn't interfere with git configuration for the user running fisheye instance. If you need to use some extensions for your other work, perhaps you want to consider using dedicated system user to host fisheye with clean git configuration? As explained earlier I've opened an improvement issue to get FishEye improved so it ignores git configuration settings like this. Cheers,

Welcome!

It looks like you're new here. Sign in or register to get started.

Quick Links

Unanswered
Groups
Help

Find more posts tagged with

fisheye-crucible

fisheye-crucible-administration