Hi Alice. I think I fixed the csh issue. I made sure that none of the environment variables that the activate.csh script touches will end with a colon. PATH and LD_LIBRARY_PATH are the only ones that need the old value appended, and I removed the others. That is, YT_DEST will always be the current yt path, with nothing else at the end. I attached the new activate.csh script, with an empty VIRTUAL_ENV value on line 10. Please set this value to your yt install directory, which looks like "/Users/acoucke/yt-i386" and try it again with a fresh terminal. If this works for you, please report back and I can commit it. Best, Casey On Sun, Mar 25, 2012 at 10:00 AM, Britton Smith <brittonsmith@gmail.com>wrote:

Hi Alice,

First of all, welcome to yt!

Someone is looking into your csh issues and will reply to the list with an update soon.

I recently installed yt on a machine running OSX Lion and did not have the issues you reported with zlib and compilers. My experience was with a brand new machine that did not have previously installed compilers or libraries. In your case, was this a clean install like mine, or did you upgrade to Lion from an older OS? If it is the latter, my suspicion is that your issues were related to having some outdated libraries in your path. I think, in general, setting the environment variable "export CC=gcc" on Lion will minimally do no harm, so we will add a note on that to the install script.

Britton

On Fri, Mar 23, 2012 at 5:41 PM, Alice Coucke <acoucke@amnh.org> wrote:

...

Hello everyone,

It looks like there is a bug with the csh environment setting. I am a Unix beginner so I might have done an error. I had to make these modifications to the install script to set up yt in a csh shell OSX Lion machine :

* Disable the install of zlib. The HDF5 build failed because of some sort of version confusion.

* Force the use of gcc over the newer clang compiler by setting : export CC=gcc at the top of the install script. Matplotlib-1.1.0 fails to compile with the default Lion cc which is clang based.

Once installed, I had difficulties to run it. I tried to follow the Extremely Simple Data Inspection.

$ yt stats $YT_DEST/src/yt-hg/tests/DD0010/moving7_0010

BUT that is what happens :

yt : [ERROR ] 2012-03-23 11:17:08,651 Couldn't figure out output type for /Users/acoucke/yt-i386:/src/yt-hg/tests/DD0010/moving7_0010 Traceback (most recent call last): File "/Users/acoucke/yt-i386/bin/yt", line 9, in <module> load_entry_point('yt==2.3', 'console_scripts', 'yt')() File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/command_line.py", line 1610, in run_main sys.exit(YT.main()) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/cmdln.py", line 257, in main return self.cmd(args) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/cmdln.py", line 280, in cmd retval = self.onecmd(argv) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/cmdln.py", line 412, in onecmd return self._dispatch_cmd(handler, argv) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/cmdln.py", line 1100, in _dispatch_cmd return handler(argv[0], opts, *args) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/command_line.py", line 256, in arg_iterate func(self, subcmd, opts, arg) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/command_line.py", line 627, in do_stats pf = _fix_pf(arg) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/command_line.py", line 44, in _fix_pf raise IOError IOError

Then if I type :

$ echo $YT_DEST

/Users/acoucke/yt-i386:

It seems that there is an unexpected colon here because :

$ ls /Users/acoucke/yt-i386: ls: /Users/acoucke/yt-i386:: No such file or directory

I have to use :

setenv YT_DEST /Users/acoucke/yt-i386

to make that works.

Best,

Alice Coucke

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Hi Britton, Thanks a lot for answering me. I asked and my computer came with Lion ... I do not really understand why these issues occurred but anyway yt works perfectly until now ! Best regards, Alice ________________________________ From: yt-users-bounces@lists.spacepope.org [yt-users-bounces@lists.spacepope.org] on behalf of Britton Smith [brittonsmith@gmail.com] Sent: Sunday, March 25, 2012 1:00 PM To: Discussion of the yt analysis package Subject: Re: [yt-users] Csh environment setting bug Hi Alice, First of all, welcome to yt! Someone is looking into your csh issues and will reply to the list with an update soon. I recently installed yt on a machine running OSX Lion and did not have the issues you reported with zlib and compilers. My experience was with a brand new machine that did not have previously installed compilers or libraries. In your case, was this a clean install like mine, or did you upgrade to Lion from an older OS? If it is the latter, my suspicion is that your issues were related to having some outdated libraries in your path. I think, in general, setting the environment variable "export CC=gcc" on Lion will minimally do no harm, so we will add a note on that to the install script. Britton On Fri, Mar 23, 2012 at 5:41 PM, Alice Coucke <acoucke@amnh.org<mailto:acoucke@amnh.org>> wrote: Hello everyone, It looks like there is a bug with the csh environment setting. I am a Unix beginner so I might have done an error. I had to make these modifications to the install script to set up yt in a csh shell OSX Lion machine : * Disable the install of zlib. The HDF5 build failed because of some sort of version confusion. * Force the use of gcc over the newer clang compiler by setting : export CC=gcc at the top of the install script. Matplotlib-1.1.0 fails to compile with the default Lion cc which is clang based. Once installed, I had difficulties to run it. I tried to follow the Extremely Simple Data Inspection. $ yt stats $YT_DEST/src/yt-hg/tests/DD0010/moving7_0010 BUT that is what happens : yt : [ERROR ] 2012-03-23 11:17:08,651 Couldn't figure out output type for /Users/acoucke/yt-i386:/src/yt-hg/tests/DD0010/moving7_0010 Traceback (most recent call last): File "/Users/acoucke/yt-i386/bin/yt", line 9, in <module> load_entry_point('yt==2.3', 'console_scripts', 'yt')() File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/command_line.py", line 1610, in run_main sys.exit(YT.main()) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/cmdln.py", line 257, in main return self.cmd(args) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/cmdln.py", line 280, in cmd retval = self.onecmd(argv) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/cmdln.py", line 412, in onecmd return self._dispatch_cmd(handler, argv) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/cmdln.py", line 1100, in _dispatch_cmd return handler(argv[0], opts, *args) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/command_line.py", line 256, in arg_iterate func(self, subcmd, opts, arg) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/command_line.py", line 627, in do_stats pf = _fix_pf(arg) File "/Users/acoucke/yt-i386/src/yt-hg/yt/utilities/command_line.py", line 44, in _fix_pf raise IOError IOError Then if I type : $ echo $YT_DEST /Users/acoucke/yt-i386: It seems that there is an unexpected colon here because : $ ls /Users/acoucke/yt-i386: ls: /Users/acoucke/yt-i386:: No such file or directory I have to use : setenv YT_DEST /Users/acoucke/yt-i386 to make that works. Best, Alice Coucke _______________________________________________ yt-users mailing list yt-users@lists.spacepope.org<mailto:yt-users@lists.spacepope.org> http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org