intermittent FileAlreadyExistsException on Windows #117

schmir · 2015-02-01T21:00:42Z

I get intermittent java.nio.file.FileAlreadyExistsException when building a release on Windows. These happen after AOT compilation in the commit! function. Part of the problem is that io/delete-file is called with a second 'true' argument in boot.file/empty-dir!. That is, it silently ignores errors when deleting the file.

Is there a reason why boot explicitly tries to ignore errors here?

Later on commit! tries to hard-link a file to the same path and the file already exists.

Here's log output from a slightly patched boot

Compiling 55/55 steinmetz.version...
ERROR DELETING32#<File C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\3v4\-x24pa9\steinmetz\tab_tab.clj>
ERROR DELETING32#<File C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\3v4\-x24pa9\steinmetz\version.clj>
ERROR DELETING32#<File C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\3v4\-x24pa9\steinmetz>
hard-link32#<WindowsPath C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\3v4\-x24pa9\steinmetz\version.clj>32#<WindowsPath C:\Users\ralf\.boot\
tmp\Users\ralf\home\steinmetz\3v4\-7kd6cy\698743b3d94f0a87dba52c360c41a38b>
ERROR in hard-link32#<FileAlreadyExistsException java.nio.file.FileAlreadyExistsException: C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\3v4\
-x24pa9\steinmetz\version.clj -> C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\3v4\-7kd6cy\698743b3d94f0a87dba52c360c41a38b>
          clojure.lang.ExceptionInfo: java.nio.file.FileAlreadyExistsException: C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\3v4\-x24pa9
\steinmetz\version.clj -> C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\3v4\-7kd6cy\698743b3d94f0a87dba52c360c41a38b
    data: {:file
       "..\\Users\\ralf\\AppData\\Local\\Temp\\boot.user1661604896684391295.clj",
       :line 31}
 java.util.concurrent.ExecutionException: java.nio.file.FileAlreadyExistsException: C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\3v4\-x24pa9
\steinmetz\version.clj -> C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\3v4\-7kd6cy\698743b3d94f0a87dba52c360c41a38b
java.nio.file.FileAlreadyExistsException: C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\3v4\-x24pa9\steinmetz\version.clj -> C:\Users\ralf\.b
oot\tmp\Users\ralf\home\steinmetz\3v4\-7kd6cy\698743b3d94f0a87dba52c360c41a38b
     file: "C:\\Users\\ralf\\.boot\\tmp\\Users\\ralf\\home\\steinmetz\\3v4\\-x24pa9\\steinmetz\\version.clj"
    otherFile: "C:\\Users\\ralf\\.boot\\tmp\\Users\\ralf\\home\\steinmetz\\3v4\\-7kd6cy\\698743b3d94f0a87dba52c360c41a38b"
sun.nio.fs.WindowsException.translateToIOException             WindowsException.java:   81
  sun.nio.fs.WindowsException.rethrowAsIOException             WindowsException.java:   97
   sun.nio.fs.WindowsFileSystemProvider.createLink    WindowsFileSystemProvider.java:  608
                           ...
                   boot.file/hard-link                          file.clj:  129
               boot.file/copy-with-lastmod                          file.clj:  143
            boot.tmpdir.TmpFileSet/commit!                        tmpdir.clj:   69
                 boot.core/commit!                          core.clj:  336
            boot.task.built-in/fn/fn/fn/fn                      built_in.clj:  438
            boot.task.built-in/fn/fn/fn/fn                      built_in.clj:  444
            boot.task.built-in/fn/fn/fn/fn                      built_in.clj:  232
                   boot.core/run-tasks                          core.clj:  637
                           ...
                  boot.user/eval295/fn  boot.user1661604896684391295.clj:   33
           clojure.core/binding-conveyor-fn/fn                          core.clj: 1910
                           ...

(Windows can't delete files that are in use)

schmir · 2015-02-14T21:27:47Z

I've used http://file-leak-detector.kohsuke.org/ to get an idea which parts of boot hold on to files, when they shouldn't.

It looks like clojure's compile method, or rather clojure.lang.RT.lastModified relies on garbage collection to close the files:

#205 C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\2mg\-x24pa9\steinmetz\fx\config.clj by thread:clojure-agent-send-off-pool-0 on Sat Feb 14 19:58:46 UTC 2015
    at java.io.FileInputStream.(FileInputStream.java:139)
    at java.io.FileInputStream.(FileInputStream.java:93)
    at sun.net.www.protocol.file.FileURLConnection.connect(FileURLConnection.java:90)
    at sun.net.www.protocol.file.FileURLConnection.initializeHeaders(FileURLConnection.java:110)
    at sun.net.www.protocol.file.FileURLConnection.getLastModified(FileURLConnection.java:178)
    at clojure.lang.RT.lastModified(RT.java:390)
    at clojure.lang.RT.load(RT.java:421)
    at clojure.lang.RT.load(RT.java:411)
    at clojure.core$load$fn__5066.invoke(core.clj:5641)
    at clojure.core$load.doInvoke(core.clj:5640)
    at clojure.lang.RestFn.invoke(RestFn.java:408)
    at clojure.core$load_one.invoke(core.clj:5446)
    at clojure.core$compile$fn__5071.invoke(core.clj:5652)
    at clojure.core$compile.invoke(core.clj:5651)
    at pod$eval52.invoke(NO_SOURCE_FILE:0)
    at clojure.lang.Compiler.eval(Compiler.java:6703)
    at clojure.lang.Compiler.eval(Compiler.java:6693)
    at clojure.lang.Compiler.eval(Compiler.java:6666)
    at clojure.core$eval.invoke(core.clj:2927)
    at boot.pod$eval_in_STAR_.invoke(pod.clj:203)
    at clojure.lang.Var.invoke(Var.java:379)
    at org.projectodd.shimdandy.impl.ClojureRuntimeShimImpl.invoke(ClojureRuntimeShimImpl.java:88)
    at org.projectodd.shimdandy.impl.ClojureRuntimeShimImpl.invoke(ClojureRuntimeShimImpl.java:81)
    at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
    at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
    at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
    at java.lang.reflect.Method.invoke(Method.java:483)
    at clojure.lang.Reflector.invokeMatchingMethod(Reflector.java:93)
    at clojure.lang.Reflector.invokeInstanceMethod(Reflector.java:28)
    at boot.pod$eval_in_STAR_.invoke(pod.clj:206)
    at boot.task.built_in$fn__1417$fn__1418$fn__1421$fn__1422.invoke(built_in.clj:433)
    at boot.task.built_in$fn__1443$fn__1444$fn__1447$fn__1448.invoke(built_in.clj:446)
    at boot.task.built_in$fn__1190$fn__1191$fn__1194$fn__1195.invoke(built_in.clj:232)
    at boot.core$run_tasks.invoke(core.clj:663)
    at clojure.lang.Var.invoke(Var.java:379)
    at boot.user$eval297$fn__298.invoke(boot.user4212477544188689077.clj:33)
    at clojure.core$binding_conveyor_fn$fn__4145.invoke(core.clj:1910)
    at clojure.lang.AFn.call(AFn.java:18)
    at java.util.concurrent.FutureTask.run(FutureTask.java:266)
    at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
    at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
    at java.lang.Thread.run(Thread.java:745)

schmir · 2015-02-16T09:09:49Z

I've reported that one on the clojure's jira: http://dev.clojure.org/jira/browse/CLJ-1659

I could fix the issue by forcing an out of memory error since that also forces garbage collection. But I'm not ready for that yet... see #117 and #138

micha · 2015-03-06T23:50:15Z

Idea: (maybe dumb) does windows allow us to move files that are open? Perhaps we could move the files to a garbage place instead of deleting them, maybe all the time or maybe only when there's an error?

schmir · 2015-03-07T17:41:51Z

moving files also won't work. what about using a new empty directory? would that possibly work?

micha · 2015-03-07T22:30:39Z

Yes, I think we can do that. It requires some modifications in boot.core, but I think it will work.

micha · 2015-03-07T22:31:36Z

Hmm, actually it might not work, because we can't remove directories from the class path, so the old files would still be on the class path, which would break things.

micha · 2015-03-11T00:41:53Z

@schmir Can you please try with master and see if the fix for #160 helps at all?

schmir · 2015-03-11T08:34:08Z

I will try that. But I'm sure it won't help.

schmir · 2015-03-11T09:14:59Z

The problem still exists. The issue is that compile relies on garbage
collection to close the filehandles.

Here's a short log with tracebacks:

...
Compiling 55/56 steinmetz.tab-tab...
Compiling 56/56 steinmetz.version...
java.io.IOException: Couldn't delete C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-x24pa9\steinmetz\lib\nshelper.clj
    clojure.java.io/delete-file                           io.clj:  426
                ...
          boot.file/delete-file                         file.clj:   39
           boot.file/empty-dir!                         file.clj:   53
                ...
         clojure.core/apply                         core.clj:  624
     boot.tmpdir.TmpFileSet/commit!                       tmpdir.clj:   66
          boot.core/commit!                         core.clj:  367
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  495
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  501
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  289
        boot.core/run-tasks                         core.clj:  680
                ...
           boot.user/eval387/fn  boot.user106059478854924232.clj:   35
clojure.core/binding-conveyor-fn/fn                         core.clj: 1910
                ...
java.io.IOException: Couldn't delete C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-x24pa9\steinmetz\lib\query.clj
    clojure.java.io/delete-file                           io.clj:  426
                ...
          boot.file/delete-file                         file.clj:   39
           boot.file/empty-dir!                         file.clj:   53
                ...
         clojure.core/apply                         core.clj:  624
     boot.tmpdir.TmpFileSet/commit!                       tmpdir.clj:   66
          boot.core/commit!                         core.clj:  367
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  495
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  501
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  289
        boot.core/run-tasks                         core.clj:  680
                ...
           boot.user/eval387/fn  boot.user106059478854924232.clj:   35
clojure.core/binding-conveyor-fn/fn                         core.clj: 1910
                ...
java.io.IOException: Couldn't delete C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-x24pa9\steinmetz\lib\svnr.clj
    clojure.java.io/delete-file                           io.clj:  426
                ...
          boot.file/delete-file                         file.clj:   39
           boot.file/empty-dir!                         file.clj:   53
                ...
         clojure.core/apply                         core.clj:  624
     boot.tmpdir.TmpFileSet/commit!                       tmpdir.clj:   66
          boot.core/commit!                         core.clj:  367
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  495
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  501
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  289
        boot.core/run-tasks                         core.clj:  680
                ...
           boot.user/eval387/fn  boot.user106059478854924232.clj:   35
clojure.core/binding-conveyor-fn/fn                         core.clj: 1910
                ...
java.io.IOException: Couldn't delete C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-x24pa9\steinmetz\lib\tab_string.clj
    clojure.java.io/delete-file                           io.clj:  426
                ...
          boot.file/delete-file                         file.clj:   39
           boot.file/empty-dir!                         file.clj:   53
                ...
         clojure.core/apply                         core.clj:  624
     boot.tmpdir.TmpFileSet/commit!                       tmpdir.clj:   66
          boot.core/commit!                         core.clj:  367
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  495
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  501
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  289
        boot.core/run-tasks                         core.clj:  680
                ...
           boot.user/eval387/fn  boot.user106059478854924232.clj:   35
clojure.core/binding-conveyor-fn/fn                         core.clj: 1910
                ...
java.io.IOException: Couldn't delete C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-x24pa9\steinmetz\lib\tzr.clj
    clojure.java.io/delete-file                           io.clj:  426
                ...
          boot.file/delete-file                         file.clj:   39
           boot.file/empty-dir!                         file.clj:   53
                ...
         clojure.core/apply                         core.clj:  624
     boot.tmpdir.TmpFileSet/commit!                       tmpdir.clj:   66
          boot.core/commit!                         core.clj:  367
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  495
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  501
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  289
        boot.core/run-tasks                         core.clj:  680
                ...
           boot.user/eval387/fn  boot.user106059478854924232.clj:   35
clojure.core/binding-conveyor-fn/fn                         core.clj: 1910
                ...
java.io.IOException: Couldn't delete C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-x24pa9\steinmetz\lib\tzr_map.clj
    clojure.java.io/delete-file                           io.clj:  426
                ...
          boot.file/delete-file                         file.clj:   39
           boot.file/empty-dir!                         file.clj:   53
                ...
         clojure.core/apply                         core.clj:  624
     boot.tmpdir.TmpFileSet/commit!                       tmpdir.clj:   66
          boot.core/commit!                         core.clj:  367
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  495
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  501
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  289
        boot.core/run-tasks                         core.clj:  680
                ...
           boot.user/eval387/fn  boot.user106059478854924232.clj:   35
clojure.core/binding-conveyor-fn/fn                         core.clj: 1910
                ...
java.io.IOException: Couldn't delete C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-x24pa9\steinmetz\lib\util.clj
    clojure.java.io/delete-file                           io.clj:  426
                ...
          boot.file/delete-file                         file.clj:   39
           boot.file/empty-dir!                         file.clj:   53
                ...
         clojure.core/apply                         core.clj:  624
     boot.tmpdir.TmpFileSet/commit!                       tmpdir.clj:   66
          boot.core/commit!                         core.clj:  367
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  495
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  501
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  289
        boot.core/run-tasks                         core.clj:  680
                ...
           boot.user/eval387/fn  boot.user106059478854924232.clj:   35
clojure.core/binding-conveyor-fn/fn                         core.clj: 1910
                ...
java.io.IOException: Couldn't delete C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-x24pa9\steinmetz\lib
    clojure.java.io/delete-file                           io.clj:  426
                ...
          boot.file/delete-file                         file.clj:   39
           boot.file/empty-dir!                         file.clj:   53
                ...
         clojure.core/apply                         core.clj:  624
     boot.tmpdir.TmpFileSet/commit!                       tmpdir.clj:   66
          boot.core/commit!                         core.clj:  367
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  495
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  501
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  289
        boot.core/run-tasks                         core.clj:  680
                ...
           boot.user/eval387/fn  boot.user106059478854924232.clj:   35
clojure.core/binding-conveyor-fn/fn                         core.clj: 1910
                ...
java.io.IOException: Couldn't delete C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-x24pa9\steinmetz
    clojure.java.io/delete-file                           io.clj:  426
                ...
          boot.file/delete-file                         file.clj:   39
           boot.file/empty-dir!                         file.clj:   53
                ...
         clojure.core/apply                         core.clj:  624
     boot.tmpdir.TmpFileSet/commit!                       tmpdir.clj:   66
          boot.core/commit!                         core.clj:  367
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  495
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  501
     boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  289
        boot.core/run-tasks                         core.clj:  680
                ...
           boot.user/eval387/fn  boot.user106059478854924232.clj:   35
clojure.core/binding-conveyor-fn/fn                         core.clj: 1910
                ...
          clojure.lang.ExceptionInfo: java.nio.file.FileAlreadyExistsException: C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-x24pa9\steinmetz\lib\util.clj -> C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-7kd6cy\0b2fb7c02ae60a30c32155d88703e941
    data: {:file
       "C:\\Users\\ralf\\AppData\\Local\\Temp\\2\\boot.user106059478854924232.clj",
       :line 33}
 java.util.concurrent.ExecutionException: java.nio.file.FileAlreadyExistsException: C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-x24pa9\steinmetz\lib\util.clj -> C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-7kd6cy\0b2fb7c02ae60a30c32155d88703e941
java.nio.file.FileAlreadyExistsException: C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-x24pa9\steinmetz\lib\util.clj -> C:\Users\ralf\.boot\tmp\Users\ralf\home\steinmetz\ls\-7kd6cy\0b2fb7c02ae60a30c32155d88703e941
     file: "C:\\Users\\ralf\\.boot\\tmp\\Users\\ralf\\home\\steinmetz\\ls\\-x24pa9\\steinmetz\\lib\\util.clj"
    otherFile: "C:\\Users\\ralf\\.boot\\tmp\\Users\\ralf\\home\\steinmetz\\ls\\-7kd6cy\\0b2fb7c02ae60a30c32155d88703e941"
sun.nio.fs.WindowsException.translateToIOException            WindowsException.java:   81
  sun.nio.fs.WindowsException.rethrowAsIOException            WindowsException.java:   97
   sun.nio.fs.WindowsFileSystemProvider.createLink   WindowsFileSystemProvider.java:  608
                           ...
                   boot.file/hard-link                         file.clj:  115
               boot.file/copy-with-lastmod                         file.clj:  128
            boot.tmpdir.TmpFileSet/commit!                       tmpdir.clj:   69
                 boot.core/commit!                         core.clj:  367
            boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  495
            boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  501
            boot.task.built-in/fn/fn/fn/fn                     built_in.clj:  289
                   boot.core/run-tasks                         core.clj:  680
                           ...
                  boot.user/eval387/fn  boot.user106059478854924232.clj:   35
           clojure.core/binding-conveyor-fn/fn                         core.clj: 1910
                           ...

zk · 2015-04-10T05:41:57Z

FWIW I'm getting these on OSX as well: https://gist.github.com/zk/6d5b841174a795dc238c

Boot App Version: 2.0.0-rc9
Boot Lib Version: 2.0.0-rc12
Clojure Version:  1.6.0
java version "1.7.0_71"
OSX 10.10.3

pietromenna · 2015-05-06T18:08:54Z

Is there a way I could reproduce the issue on OS X?

zk · 2015-05-06T18:16:26Z

@pietromenna Perhaps downgrade your boot lib version to 2.0.0-rc12?

This problem was fixed (for me) by upgrading boot lib to 2.0.0-rc14, apologies for not updating the ticket.

clojure's compile function leaks file descriptors, i.e. it relies on garbage collection to close the files. I'm trying to use boot [1] on windows and ran into the problem, that files could not be deleted intermittently [2]. The problem is that clojure's compile function, or rather clojure.lang.RT.lastModified relies on garbage collection to close files. We now make sure the input stream is closed. The same could possibly be done for the output stream, but it's not required to fix the issue. see [3] for more information [1] http://boot-clj.com/ [2] boot-clj/boot#117 [3] http://dev.clojure.org/jira/browse/CLJ-1659

schmir · 2015-08-10T20:27:48Z

this has been fixed in clojure's git repository and will be fixed in clojure 1.8. see http://dev.clojure.org/jira/browse/CLJ-1659

martinklepsch · 2016-01-15T11:15:11Z

Has anyone tested if this is gone with one of 1.8's RCs?

schmir · 2016-01-15T11:26:59Z

I've tested that with a version from git when I wrote that patch.

Eeveline · 2016-03-16T11:33:02Z

I'm still having this issue on Windows 10 with clojure 1.8 and boot 2.6.0-SNAPSHOT. Has anyone found a solution to this problem?

schmir · 2016-03-16T16:48:18Z

Can you try http://file-leak-detector.kohsuke.org/ in order to find who's holding on to open files? or provide a minimal reproducible test case?

Eeveline · 2016-03-23T13:48:24Z

I tested with other project, which all worked. The project I'm working on is already very big and completely developed on OSX - so I'm using a mac now. Thanks for the help :)

burn2delete · 2019-04-27T19:04:43Z

Closing as this issue seems to be resolved on recent platforms and boot builds.

schmir added Windows Bug labels Feb 2, 2015

schmir mentioned this issue Feb 23, 2015

Windows - 'boot pom jar' fails due to "file already exists" exception #138

Closed

schmir added a commit that referenced this issue Feb 23, 2015

at least log an error when delete-file fails

5b34b81

I could fix the issue by forcing an out of memory error since that also forces garbage collection. But I'm not ready for that yet... see #117 and #138

micha added the blocked label Apr 5, 2015

burn2delete closed this as completed Apr 27, 2019

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intermittent FileAlreadyExistsException on Windows #117

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intermittent FileAlreadyExistsException on Windows #117

intermittent FileAlreadyExistsException on Windows #117

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micha commented Mar 11, 2015

schmir commented Mar 11, 2015

schmir commented Mar 11, 2015

zk commented Apr 10, 2015

pietromenna commented May 6, 2015

zk commented May 6, 2015

schmir commented Aug 10, 2015

martinklepsch commented Jan 15, 2016

schmir commented Jan 15, 2016

Eeveline commented Mar 16, 2016

schmir commented Mar 16, 2016

Eeveline commented Mar 23, 2016

burn2delete commented Apr 27, 2019