[yt-users] broke yt trying to update
Nathan Goldbaum
nathan12343 at gmail.com
Wed Aug 28 20:21:17 PDT 2013
Hi Stephanie,
Thanks very much for the detailed and conscientious reports.
The first issue is an upstream issue with the zeromq release (3.2.3) we
distribute: https://github.com/zeromq/zeromq3-x/issues/103. As you saw, it
can be fixed by adding the needed newline. I've reported an issue about
this on our issue tracker (
https://bitbucket.org/yt_analysis/yt/issue/641/zeromq-323-release-tarball-has-a-small),
it should hopefully be fixed soon so others will not have the same issue.
The second issue is due to a benign typo in the install script. I've
opened a PR to fix it:
https://bitbucket.org/yt_analysis/yt/pull-request/582/fixing-a-benign-typo-in-the-install-script/diff
.
Cheers,
Nathan Goldbaum
On Wed, Aug 28, 2013 at 7:34 PM, Stephanie Tonnesen <stonnes at gmail.com>wrote:
> Okay! Thanks for all the help, the new installation loaded yt.mods for me
> (other checks will have to wait for tomorrow)!
>
> For anyone who is interested, here are two things I thought were sort of
> strange in the installation:
>
> 1) on my first attempt at bash install_script.sh, the installation failed
> with the message below:
>
> Installing BZLIB
> Installing ZLIB
> Installing PNG
> Installing FreeType2
> Installing HDF5
> Installing SQLite3
> Installing Python. This may take a while, but don't worry. yt loves you.
> Installing mercurial-2.7
> Setting YT_DIR=/u/stonnes/Installs/yt-x86_64/src/yt-hg/
> Installing distribute
> Installing pip
> Installing numpy-1.7.1
> Installing matplotlib-1.3.0
> Installing ZeroMQ
> ********************************************
> FAILURE REPORT:
> ********************************************
>
> CXXLD test_invalid_rep
> CXX test_msg_flags.o
> CXXLD test_msg_flags
> CXX test_connect_resolve.o
> CXXLD test_connect_resolve
> CXX test_connect_delay.o
> test_connect_delay.cpp:260:2: error: no newline at end of file
> make[1]: *** [test_connect_delay.o] Error 1
> make[1]: Leaving directory
> `/u/stonnes/Installs/yt-x86_64/src/zeromq-3.2.3/tests'
> make: *** [install-recursive] Error 1
>
> ********************************************
> ********************************************
> Failure. Check /u/stonnes/Installs/yt-x86_64/yt_install.log. The last 10
> lines are above.
>
> This was easily fixed by just adding a line at the end of the file. I am
> not sure if it was my computer that was the problem, or if a recent change
> is going to make this fail for other people, too.
>
> 2) This initial set-up list looks normal, but it seems strange that for
> *almost* everything =1 means the installation will happen, EXCEPT Rockstar.
>
> INST_ZLIB = 1 so I will be installing zlib
> INST_BZLIB = 1 so I will be installing bzlib
> INST_PNG = 1 so I will be installing libpng
> INST_FTYPE = 1 so I will be installing freetype2
> INST_SQLITE3 = 1 so I will be installing SQLite3
> INST_HG = 1 so I will be installing Mercurial
> INST_ENZO = 0 so I won't be checking out Enzo
> INST_PYX = 0 so I won't be installing PyX
> INST_SCIPY = 0 so I won't be installing scipy
> INST_0MQ = 1 so I will be installing ZeroMQ
> INST_ROCKSTAR = 0 so I will be installing Rockstar
>
>
> -Stephanie
>
>
> On Wed, Aug 28, 2013 at 9:25 PM, j s oishi <jsoishi at gmail.com> wrote:
>
>> Yup, that's exactly where it goes.
>>
>> j
>>
>>
>> On Wed, Aug 28, 2013 at 9:24 PM, Stephanie Tonnesen <stonnes at gmail.com>wrote:
>>
>>> Actually, another question then about rerunning a new copy of the
>>> install script. Where do I put it to run it again? right now my file
>>> structure looks like
>>>
>>> /u/stonnes/Installs/yt-x86_64/
>>> bin/
>>> include/
>>> lib/
>>> man/
>>> share/
>>> src/
>>> yt_install.log
>>>
>>> do I put the new install_script.sh in Installs/ ?
>>>
>>> Thanks again,
>>>
>>> Stephanie
>>>
>>>
>>> On Wed, Aug 28, 2013 at 9:14 PM, Stephanie Tonnesen <stonnes at gmail.com>wrote:
>>>
>>>> So running yt update --all did not work, unfortunately. It still gives
>>>> me the error:
>>>>
>>>> ImportError: No module names write_array
>>>>
>>>> Looks like I might have to run a new copy of the install script.
>>>>
>>>> Thanks!
>>>>
>>>> Stephanie
>>>>
>>>>
>>>> On Wed, Aug 28, 2013 at 4:40 PM, Matthew Turk <matthewturk at gmail.com>wrote:
>>>>
>>>>> Hi Stephanie,
>>>>>
>>>>> Looks to me like write_array is not accessible anymore, which is
>>>>> breaking the "yt" command. (This is a problem we should address.) At
>>>>> worst, you may need to re-run a new copy of the install script; you
>>>>> can do this over top of the old one, or remove and start anew.
>>>>>
>>>>> We have some packaging plans under way right now that will reduce the
>>>>> importance of the install script and the "yt update" command. But
>>>>> more on that as they are available!
>>>>>
>>>>> -Matt
>>>>>
>>>>> On Wed, Aug 28, 2013 at 3:55 PM, Stephanie Tonnesen <stonnes at gmail.com>
>>>>> wrote:
>>>>> > Dear all,
>>>>> >
>>>>> > After a pretty long (few month) hiatus, I just tried to update my yt
>>>>> and
>>>>> > seem to have broken it.
>>>>> >
>>>>> > Now my desktop is frozen so I can't cut and paste the long outputs,
>>>>> but it
>>>>> > boils down to:
>>>>> >
>>>>> >>yt update
>>>>> >
>>>>> >
>>>>> > The current version of the code is:
>>>>> >
>>>>> > ___
>>>>> > 0be45301e0eb (yt) tip
>>>>> > ___
>>>>> >
>>>>> > This version CAN be automatically updated.
>>>>> >
>>>>> > ....
>>>>> > added 1740 changesets with 3520 changes to 355 files (+1 heads)
>>>>> > Updating the repository
>>>>> > 126 files updates, 0 files merged, 0 files removed, 0 files
>>>>> unresolved
>>>>> > BROKEN: See /u/stonnes/Installs/yt-x86_64/src/yt-hg/yt_updater.log
>>>>> >
>>>>> > So I looked at that
>>>>> >
>>>>> > and the first thing it had was:
>>>>> > pulling from https://bitbucket.org/yt_analysis/yt/
>>>>> > (run 'hg update' to get a working copy)
>>>>> >
>>>>> > So I ran hg update and then it failed and said I had no module named
>>>>> > write_array
>>>>> >
>>>>> > When I start python2.7
>>>>> >
>>>>> > and type
>>>>> >>> from yt.mods import *
>>>>> >
>>>>> > I get the same error (no module write_array)
>>>>> >
>>>>> > Any advice would be appreciated!
>>>>> >
>>>>> > Thanks,
>>>>> >
>>>>> > Stephanie
>>>>> >
>>>>> > _______________________________________________
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