conda-forge / pyferret-feedstock

A conda-smithy repository for pyferret.

About pyferret-feedstock

Feedstock license: BSD-3-Clause

Home: http://ferret.pmel.noaa.gov/Ferret

Package license: MIT

Summary: An Analysis Tool for Gridded and Non-Gridded Data.

Development: https://github.com/NOAA-PMEL/PyFerret

Documentation: https://ferret.pmel.noaa.gov/Ferret/

The PyFerret program and Python module from NOAA/PMEL. See https://ferret.pmel.noaa.gov/Ferret/ for more information about Ferret and PyFerret.

This repository is regularly synchronized with PyFerret repository at PMEL (the pyferret branch of the ferret project in the subversion repository at PMEL) using git-svn.

Current build status

Azure

Variant Status linux_64_numpy1.21python3.10.____cpython linux_64_numpy1.21python3.8.____cpython linux_64_numpy1.21python3.9.____cpython linux_64_numpy1.23python3.11.____cpython osx_64_numpy1.21python3.10.____cpython osx_64_numpy1.21python3.8.____cpython osx_64_numpy1.21python3.9.____cpython osx_64_numpy1.23python3.11.____cpython

Current release info

Name	Downloads	Version	Platforms

Installing pyferret

Installing pyferret from the conda-forge channel can be achieved by adding conda-forge to your channels with:

conda config --add channels conda-forge
conda config --set channel_priority strict

Once the conda-forge channel has been enabled, pyferret can be installed with conda:

conda install pyferret

or with mamba:

mamba install pyferret

It is possible to list all of the versions of pyferret available on your platform with conda:

conda search pyferret --channel conda-forge

or with mamba:

mamba search pyferret --channel conda-forge

Alternatively, mamba repoquery may provide more information:

# Search all versions available on your platform:
mamba repoquery search pyferret --channel conda-forge

# List packages depending on `pyferret`:
mamba repoquery whoneeds pyferret --channel conda-forge

# List dependencies of `pyferret`:
mamba repoquery depends pyferret --channel conda-forge

About conda-forge

conda-forge is a community-led conda channel of installable packages. In order to provide high-quality builds, the process has been automated into the conda-forge GitHub organization. The conda-forge organization contains one repository for each of the installable packages. Such a repository is known as a feedstock.

A feedstock is made up of a conda recipe (the instructions on what and how to build the package) and the necessary configurations for automatic building using freely available continuous integration services. Thanks to the awesome service provided by Azure, GitHub, CircleCI, AppVeyor, Drone, and TravisCI it is possible to build and upload installable packages to the conda-forge Anaconda-Cloud channel for Linux, Windows and OSX respectively.

To manage the continuous integration and simplify feedstock maintenance conda-smithy has been developed. Using the conda-forge.yml within this repository, it is possible to re-render all of this feedstock's supporting files (e.g. the CI configuration files) with conda smithy rerender.

For more information please check the conda-forge documentation.

Terminology

feedstock - the conda recipe (raw material), supporting scripts and CI configuration.

conda-smithy - the tool which helps orchestrate the feedstock. Its primary use is in the construction of the CI .yml files and simplify the management of many feedstocks.

conda-forge - the place where the feedstock and smithy live and work to produce the finished article (built conda distributions)

Updating pyferret-feedstock

If you would like to improve the pyferret recipe or build a new package version, please fork this repository and submit a PR. Upon submission, your changes will be run on the appropriate platforms to give the reviewer an opportunity to confirm that the changes result in a successful build. Once merged, the recipe will be re-built and uploaded automatically to the conda-forge channel, whereupon the built conda packages will be available for everybody to install and use from the conda-forge channel. Note that all branches in the conda-forge/pyferret-feedstock are immediately built and any created packages are uploaded, so PRs should be based on branches in forks and branches in the main repository should only be used to build distinct package versions.

In order to produce a uniquely identifiable distribution:

• If the version of a package is not being increased, please add or increase the build/number.
• If the version of a package is being increased, please remember to return the build/number back to 0.

Feedstock Maintainers

• @eugeneburger
• @karlmattsmith
• @ngam
• @ocefpaf

pyferret-feedstock's Issues

New Development Build

• I read the conda-forge documentation and could not find the solution for my problem there.

Issue:
@ocefpaf, I'd like to build against the v7.6.4-beta tag in NOAA-PMEL/PyFerret, but the changes for the development version of the conda build seem not to belong to a specific fork. Should I make the changes for the build there anyway? If not, where?

Thanks!

New official release - 7.6.5

Hi @ocefpaf ,

I'd like to make an official release of 7.6.5. When you have a moment, could you take a look at the intel-mac.patch on the dev channel and see if you can figure out what's causing the build to fail? I wasn't able to reproduce the same error with a local build of PyFerret on my mac. Maybe there's something that's obvious to you that I've missed.

It looks to me like the container on Azure is working with a different Fortran compiler version than what I've been testing on. Perhaps there's a way around that so we don't have to patch the conda build after the github release? I'd love to just keep everything current, but newer versions of gfortran really complain when they encounter some of the older PyFerret files.

As always, thank you for your help.

Best Regards,
Joshua

PyFerret does not work with Python 3.10 (grdelWindowCreate: error when calling createWindow in pyferret.graphbind: PY_SSIZE_T_CLEAN macro must be defined for '#' formats)

Solution to issue cannot be found in the documentation.

• I checked the documentation.

Issue

Installing PyFerret using the command in their documentation

conda create -n ferret-miniforge pyferret ferret_datasets --yes

creates an environnement with Python 3.10. It seems PyFerret is not ready for that:

$ ferret
        NOAA/PMEL TMAP
        PyFerret v7.64 (optimized)
        Linux 5.11.0-1021-azure - 12/10/21
         2-Mar-22 12:11

yes? go tutorial
... setting up demo environment ...
grdelWindowCreate: error when calling createWindow in pyferret.graphbind: PY_SSIZE_T_CLEAN macro must be defined for '#' formats
FGD_GACWK: null windowobj
FGD_GSCR: null windowobj
FGD_GSCR: null windowobj
FGD_GSCR: null windowobj
FGD_GSCR: null windowobj
FGD_GSCR: null windowobj
FGD_GSCR: null windowobj
FGD_GSPLR: null windowobj
# etc
FGD_GQDSP: null windowobj
FGD_GSWKVP: null windowobj
FGD_GSELNT: no active window
FGD_GSCLIP: no active window
FGD_GUWK: null windowobj
FGD_SEND_IMAGE_SCALE: null windowobj
FGD_GSELNT: no active window
FGD_GUWK: null windowobj
FGD_GQDSP: null windowobj
 **ERROR: value out of legal range: The implied size in pixels is too small
SET WINDOW/SIZE=0.7/ASPECT=.75:axis

Installed packages

# packages in environment at /path/to/miniforge3/envs/ferret-miniforge:
#
# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                 conda_forge    conda-forge
_openmp_mutex             4.5                       1_gnu    conda-forge
alsa-lib                  1.2.3                h516909a_0    conda-forge
bzip2                     1.0.8                h7f98852_4    conda-forge
c-ares                    1.18.1               h7f98852_0    conda-forge
ca-certificates           2021.10.8            ha878542_0    conda-forge
cairo                     1.16.0            ha00ac49_1009    conda-forge
curl                      7.81.0               h2574ce0_0    conda-forge
dbus                      1.13.6               h5008d03_3    conda-forge
expat                     2.4.6                h27087fc_0    conda-forge
ferret_datasets           7.6                           0    conda-forge
font-ttf-dejavu-sans-mono 2.37                 hab24e00_0    conda-forge
font-ttf-inconsolata      3.000                h77eed37_0    conda-forge
font-ttf-source-code-pro  2.038                h77eed37_0    conda-forge
font-ttf-ubuntu           0.83                 hab24e00_0    conda-forge
fontconfig                2.13.96              ha180cfb_0    conda-forge
fonts-conda-ecosystem     1                             0    conda-forge
fonts-conda-forge         1                             0    conda-forge
freetype                  2.10.4               h0708190_1    conda-forge
fribidi                   1.0.10               h36c2ea0_0    conda-forge
gettext                   0.19.8.1          h73d1719_1008    conda-forge
glib                      2.70.2               h780b84a_4    conda-forge
glib-tools                2.70.2               h780b84a_4    conda-forge
graphite2                 1.3.13            h58526e2_1001    conda-forge
gst-plugins-base          1.18.5               hf529b03_3    conda-forge
gstreamer                 1.18.5               h9f60fe5_3    conda-forge
harfbuzz                  3.4.0                hb4a5f5f_0    conda-forge
hdf4                      4.2.15               h10796ff_3    conda-forge
hdf5                      1.12.1          nompi_h2750804_103    conda-forge
icu                       69.1                 h9c3ff4c_0    conda-forge
jpeg                      9e                   h7f98852_0    conda-forge
keyutils                  1.6.1                h166bdaf_0    conda-forge
krb5                      1.19.2               h3790be6_4    conda-forge
ld_impl_linux-64          2.36.1               hea4e1c9_2    conda-forge
libblas                   3.9.0           13_linux64_openblas    conda-forge
libcblas                  3.9.0           13_linux64_openblas    conda-forge
libclang                  13.0.1          default_hc23dcda_0    conda-forge
libcurl                   7.81.0               h2574ce0_0    conda-forge
libedit                   3.1.20191231         he28a2e2_2    conda-forge
libev                     4.33                 h516909a_1    conda-forge
libevent                  2.1.10               h9b69904_4    conda-forge
libffi                    3.4.2                h7f98852_5    conda-forge
libgcc-ng                 11.2.0              h1d223b6_12    conda-forge
libgfortran-ng            11.2.0              h69a702a_12    conda-forge
libgfortran5              11.2.0              h5c6108e_12    conda-forge
libglib                   2.70.2               h174f98d_4    conda-forge
libgomp                   11.2.0              h1d223b6_12    conda-forge
libiconv                  1.16                 h516909a_0    conda-forge
liblapack                 3.9.0           13_linux64_openblas    conda-forge
libllvm13                 13.0.1               hf817b99_2    conda-forge
libnetcdf                 4.8.1           nompi_hb3fd0d9_101    conda-forge
libnghttp2                1.47.0               h727a467_0    conda-forge
libnsl                    2.0.0                h7f98852_0    conda-forge
libogg                    1.3.4                h7f98852_1    conda-forge
libopenblas               0.3.18          pthreads_h8fe5266_0    conda-forge
libopus                   1.3.1                h7f98852_1    conda-forge
libpng                    1.6.37               h21135ba_2    conda-forge
libpq                     14.2                 hd57d9b9_0    conda-forge
libssh2                   1.10.0               ha56f1ee_2    conda-forge
libstdcxx-ng              11.2.0              he4da1e4_12    conda-forge
libuuid                   2.32.1            h7f98852_1000    conda-forge
libvorbis                 1.3.7                h9c3ff4c_0    conda-forge
libxcb                    1.13              h7f98852_1004    conda-forge
libxkbcommon              1.0.3                he3ba5ed_0    conda-forge
libxml2                   2.9.12               h885dcf4_1    conda-forge
libzip                    1.8.0                h4de3113_1    conda-forge
libzlib                   1.2.11            h36c2ea0_1013    conda-forge
lz4-c                     1.9.3                h9c3ff4c_1    conda-forge
mysql-common              8.0.28               ha770c72_0    conda-forge
mysql-libs                8.0.28               hfa10184_0    conda-forge
ncurses                   6.3                  h9c3ff4c_0    conda-forge
netcdf-fortran            4.5.4           nompi_h2b6e579_100    conda-forge
nspr                      4.32                 h9c3ff4c_1    conda-forge
nss                       3.74                 hb5efdd6_0    conda-forge
numpy                     1.22.2          py310h454958d_0    conda-forge
openssl                   1.1.1l               h7f98852_0    conda-forge
pango                     1.48.10              h54213e6_2    conda-forge
pcre                      8.45                 h9c3ff4c_0    conda-forge
pip                       22.0.3             pyhd8ed1ab_0    conda-forge
pipedviewer               7.64                     pypi_0    pypi
pixman                    0.40.0               h36c2ea0_0    conda-forge
pthread-stubs             0.4               h36c2ea0_1001    conda-forge
pyferret                  7.64                     pypi_0    pypi
pyqt                      5.12.3          py310hff52083_8    conda-forge
pyqt-impl                 5.12.3          py310h1f8e252_8    conda-forge
pyqt5-sip                 4.19.18         py310h122e73d_8    conda-forge
pyqtchart                 5.12            py310hfcd6d55_8    conda-forge
pyqtwebengine             5.12.1          py310hfcd6d55_8    conda-forge
python                    3.10.2          h85951f9_3_cpython    conda-forge
python_abi                3.10                    2_cp310    conda-forge
qt                        5.12.9               ha98a1a1_5    conda-forge
readline                  8.1                  h46c0cb4_0    conda-forge
setuptools                60.9.3          py310hff52083_0    conda-forge
sqlite                    3.37.0               h9cd32fc_0    conda-forge
tk                        8.6.12               h27826a3_0    conda-forge
tzdata                    2021e                he74cb21_0    conda-forge
wheel                     0.37.1             pyhd8ed1ab_0    conda-forge
xorg-kbproto              1.0.7             h7f98852_1002    conda-forge
xorg-libice               1.0.10               h7f98852_0    conda-forge
xorg-libsm                1.2.3             hd9c2040_1000    conda-forge
xorg-libx11               1.7.2                h7f98852_0    conda-forge
xorg-libxau               1.0.9                h7f98852_0    conda-forge
xorg-libxdmcp             1.1.3                h7f98852_0    conda-forge
xorg-libxext              1.3.4                h7f98852_1    conda-forge
xorg-libxrender           0.9.10            h7f98852_1003    conda-forge
xorg-renderproto          0.11.1            h7f98852_1002    conda-forge
xorg-xextproto            7.3.0             h7f98852_1002    conda-forge
xorg-xproto               7.0.31            h7f98852_1007    conda-forge
xz                        5.2.5                h516909a_1    conda-forge
zlib                      1.2.11            h36c2ea0_1013    conda-forge
zstd                      1.5.2                ha95c52a_0    conda-forge

Environment info

active environment : ferret-miniforge
    active env location : /path/to/miniforge3/envs/ferret-miniforge
            shell level : 1
       user config file : /home/me/.condarc
 populated config files : /path/to/miniforge3/.condarc
                          /home/me/.condarc
          conda version : 4.11.0
    conda-build version : not installed
         python version : 3.9.10.final.0
       virtual packages : __linux=4.18.0=0
                          __glibc=2.28=0
                          __unix=0=0
                          __archspec=1=x86_64
       base environment : /path/to/miniforge3  (writable)
      conda av data dir : /path/to/miniforge3/etc/conda
  conda av metadata url : None
           channel URLs : https://conda.anaconda.org/conda-forge/linux-64
                          https://conda.anaconda.org/conda-forge/noarch
                          https://repo.anaconda.com/pkgs/main/linux-64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/r/linux-64
                          https://repo.anaconda.com/pkgs/r/noarch
          package cache : /path/to/miniforge3/pkgs
                          /home/me/.conda/pkgs
       envs directories : /path/to/miniforge3/envs
                          /home/me/.conda/envs
               platform : linux-64
             user-agent : conda/4.11.0 requests/2.27.1 CPython/3.9.10 Linux/4.18.0-240.el8.x86_64 rhel/8.3 glibc/2.28
                UID:GID : REDACTED:REDACTED
             netrc file : None
           offline mode : False

OS X binaries

We need to provide pango on OS X to build pyferret there.

@msarahan defaults has pango for Linux but not OS X. I am wondering if you have any advice for us here.

Create the data package

See #14 (comment)

Need to add activate and deactivate scripts for C-type shells?

I notice that conda (from miniconda) now works for C-type shells (tcsh in my case). However, when I activate the environment containing PyFerret, the Ferret environment variables are not defined. This is, of course, because the activate.sh and deactivate.sh script are bash shell scripts.

So do I need to add C-shell versions of these scripts, presumable as activate.csh and deactivate.csh?

Change Feedstock Maintainers

Hi Filipe,

I will be retiring at the end of this month, and I assume (since it is connected with my NOAA email) my karlmsmith GitHub account. (At a minimum I will not be seeing any messages sent to that user account.) So two changes needed:

Add Joshua Osborne ( [email protected] - @josborne-noaa ) as a feedstock maintainer as he will be taking over PyFerret development.

If desired, switch my GitHub NOAA account ( [email protected] - @karlmsmith ) to my GitHub personal account ([email protected] - @karlmattsmith )

Thanks,
Karl

how to install pyferret and use it in the jupyter notebook

Comment:

Hi there,
I just do as https://github.com/NOAA-PMEL/PyFerret/blob/master/README.md say, but I can not open it.

1. pip install ferretmagic
2. conda create -n FERRET -c conda-forge pyferret ferret_datasets --yes
3. conda activate FERRET

4. conda deactivate
   

5. Then I Move into this PyFerret installation directory and run the bin/Finstall script to create the ferret_paths.sh。

6. set the PyFerret environment variables. i.e. source ferret_paths.sh
   

How ever when I "pyferret -nodiaplay" to open it ,it say:
Traceback (most recent call last):
File "", line 1, in
ModuleNotFoundError:No module named 'pyferret'

7. if I try in the jupyter notebook, it also say ：
   ~/.local/lib/python3.9/site-packages/ferretmagic/init.py in
   ----> 1 from .ferretmagic import *

                                                                    ~/.local/lib/python3.9/site-packages/ferretmagic/ferretmagic.py in <module>
                                                                      54 import tempfile
                                                                        55 import math
                                                                   ---> 56 import pyferret
                                                                        57 import base64
                                                                        58 from shutil import rmtree
   
                                                                   ModuleNotFoundError: No module named 'pyferret'
   

Any body can help me?

@jezdez @djsutherland @xhochy @msarahan @pkgw @karlmattsmith

how to install pyferret sucessfully and use it in the jupyter notebook by Ubuntu 20.04.4 LTS

Hi there,
I just do as https://github.com/NOAA-PMEL/PyFerret/blob/master/README.md say, but I can not open it.

1. pip install ferretmagic
2. conda create -n FERRET -c conda-forge pyferret ferret_datasets --yes
3. conda activate FERRET

4. conda deactivate
   

5. Then I Move into this PyFerret installation directory and run the bin/Finstall script to create the ferret_paths.sh。

6. set the PyFerret environment variables. i.e. source ferret_paths.sh
   

How ever when I "pyferret -nodiaplay" to open it ,it say:
Traceback (most recent call last):
File "", line 1, in
ModuleNotFoundError:No module named 'pyferret'

7. if I try in the jupyter notebook, it also say ：
   ~/.local/lib/python3.9/site-packages/ferretmagic/init.py in
   ----> 1 from .ferretmagic import *

                                                                    ~/.local/lib/python3.9/site-packages/ferretmagic/ferretmagic.py in <module>
                                                                      54 import tempfile
                                                                        55 import math
                                                                   ---> 56 import pyferret
                                                                        57 import base64
                                                                        58 from shutil import rmtree
   
                                                                   ModuleNotFoundError: No module named 'pyferret'
   

Any body can help me?

feedstock strategy

Sorry I have just joined and maybe I am not sure about our strategy in this feedstock. Copying this message from #85 (we should close those two outdated open issues now).

I see @josborne-noaa merged the dev branch into main. I am super confused. This is not an official release, it says it's beta.

There are two tracks in these feedstocks:

1. official release go to main and the bot actually handles the upgrades, etc.
2. beta / dev releases can have their own standalone branch and still get published.

What's our exact strategy? IMO, this feedstock should mirror exactly the upstream in terms of official/beta releasing. We should also have a -beta or -dev flag suffixed to those beta releases.

Copying @ocefpaf to clarify if I am wrong.

---

• I read the conda-forge documentation and could not find the solution for my problem there.

Issue:

Environment (conda list):

$ conda list

Details about conda and system ( conda info ):

$ conda info

Create build for Linux Bash shell on Windows 10

PyFerret will install and run under the new Linux Bash shell on Windows 10 (Anniversary Edition).

Anaconda will install and run as well.

I would like to see the conda install for pyferret also work in the environment. Currently attempting to build the recipe as it is on this repository results in an dependency error for netcdf-fortran.

rhs@ZT:~/anaconda2$ conda build pyferret
Removing old build environment
BUILD START: pyferret-7.0.0-py27_4
(actual version deferred until further download or env creation)
WARNING:/home/rhs/anaconda2/lib/python2.7/site-packages/conda_build/build.pyc:Your recipe depends on {} at build time (for templates), but you have not listed it as a build dependency. Doing so for this build.
Error: Package missing in current linux-64 channels:

• netcdf-fortran 4.4.*
  rhs@ZT:

Old recipe, probably need to update CircleCI

@conda-forge-admin, please update circle

How to install pyferret

Linux, OS X, and Windows 10/bash

Download and install miniconda for your system. Note that Windows 10 bash must use the Linux version! The Python version in miniconda does not matter; pyferret only uses Python 2.7 and will install it in the pyferret environment.

Execute the following command on the terminal to install pyferret into conda:

conda create -n FERRET -c conda-forge pyferret --yes

To start using pyferret, execute the following command:

source activate FERRET

Some examples need the extra datasets. To install them issue:

conda install ferret_datasets

Once you are done working with pyferret you can leave this environment, if you wish, with the command:

source deactivate FERRET

In the commands above, FERRET is the environment name where pyferret is installed. You can change that to any name you like but we do not recommend installing pyferret in the root environment of miniconda. The main reason is to take advantage of the activate/deactivate script that will set up all the variables that pyferret needs. (You can test whether the pyferret environment is activated by issuing the command echo $FER_DATA and see if it returns a directory name.)

conflict over libnetcdf with nco package

PyFerret in the latest conda-forge pyferret package wants libnetcdf.so.15 (on a Linux system, under miniconda-python3) but the latest conda-forge nco package wants libnetcdf.so.13. Installing both packages in the same environment ends up with libnetcdf.so.13 and so pyferret then fails with the message that it cannot find libnetcdf.so.15. (My temporary hack solution was to create a symbolic link of libnetcdf.so.15 to libnetcdf.so.13 and everything appears to be working fine.)

I assume the quick and easy solution is to request an updated build of nco (and any other packages depending on libnetcdf) to use the latest libnetcdf library.

I didn't know if there is something missing in the pyferret configuration that we want to add, or if this is just "the way it is" - everything depending on an updated package needs updated builds.

Karl

netcdf-fortran package still expecting old libnetcdf library

Issue:
PyFerret fails with an unresolved shared library problem. The netcdf-fortran library is expecting the shared library libnetcdf.so.13 whereas the latest libnetcdf package is giving libnetcdf.so.15

FYI - From a user having a problem with the Python2.7 version of PyFerret. This is from a new installation (and updated after install) of the latest miniconda python2.7 on an RHEL7 Linus system. I then created the PyFerret environment by installing Python2.7, then installing PyFerret (to get the Python2.7 version - otherwise is goes to the Python3.x version of PyFerret). I have not tried other Python and OS versions.

Environment (conda list):

$ conda list
bzip2                     1.0.6             h14c3975_1002    conda-forge
ca-certificates           2019.3.9             hecc5488_0    conda-forge
cairo                     1.16.0            ha4e643d_1000    conda-forge
certifi                   2019.3.9                 py27_0    conda-forge
curl                      7.64.1               hf8cf82a_0    conda-forge
dbus                      1.13.6               he372182_0    conda-forge
expat                     2.2.5             hf484d3e_1002    conda-forge
ferret_datasets           7.4                           1    conda-forge
fontconfig                2.13.1            he4413a7_1000    conda-forge
freetype                  2.10.0               he983fc9_0    conda-forge
gettext                   0.19.8.1          hc5be6a0_1002    conda-forge
glib                      2.58.3            hf63aee3_1001    conda-forge
graphite2                 1.3.13            hf484d3e_1000    conda-forge
gst-plugins-base          1.14.4            hdf3bae2_1001    conda-forge
gstreamer                 1.14.4            h66beb1c_1001    conda-forge
harfbuzz                  2.4.0                h37c48d4_0    conda-forge
hdf4                      4.2.13            h9a582f1_1002    conda-forge
hdf5                      1.10.4          nompi_h3c11f04_1106    conda-forge
icu                       58.2              hf484d3e_1000    conda-forge
jpeg                      9c                h14c3975_1001    conda-forge
krb5                      1.16.3            h05b26f9_1001    conda-forge
libblas                   3.8.0               10_openblas    conda-forge
libcblas                  3.8.0               10_openblas    conda-forge
libcurl                   7.64.1               hda55be3_0    conda-forge
libedit                   3.1.20170329      hf8c457e_1001    conda-forge
libffi                    3.2.1             he1b5a44_1006    conda-forge
libgcc-ng                 8.2.0                hdf63c60_1  
libgfortran-ng            7.3.0                hdf63c60_0  
libiconv                  1.15              h516909a_1005    conda-forge
liblapack                 3.8.0               10_openblas    conda-forge
libnetcdf                 4.6.3                hf86bd3d_1    conda-forge
libpng                    1.6.37               hed695b0_0    conda-forge
libssh2                   1.8.2                h22169c7_2    conda-forge
libstdcxx-ng              8.2.0                hdf63c60_1  
libuuid                   2.32.1            h14c3975_1000    conda-forge
libxcb                    1.13              h14c3975_1002    conda-forge
libxml2                   2.9.9                h13577e0_0    conda-forge
ncurses                   6.1               hf484d3e_1002    conda-forge
netcdf-fortran            4.4.5             hea25ff8_1000    conda-forge
numpy                     1.16.3           py27he5ce36f_0    conda-forge
openblas                  0.3.6                h6e990d7_2    conda-forge
openssl                   1.1.1b               h14c3975_1    conda-forge
pango                     1.40.14           h4ea9474_1004    conda-forge
pcre                      8.41              hf484d3e_1003    conda-forge
pip                       19.1                     py27_0    conda-forge
pipedviewer               7.5                      pypi_0    pypi
pixman                    0.34.0            h14c3975_1003    conda-forge
pthread-stubs             0.4               h14c3975_1001    conda-forge
pyferret                  7.5                      pypi_0    pypi
pyqt                      5.9.2            py27hcca6a23_0    conda-forge
python                    2.7.15            h721da81_1008    conda-forge
qt                        5.9.7                h52cfd70_1    conda-forge
readline                  7.0               hf8c457e_1001    conda-forge
setuptools                41.0.1                   py27_0    conda-forge
sip                       4.19.8          py27hf484d3e_1000    conda-forge
sqlite                    3.28.0               h8b20d00_0    conda-forge
tk                        8.6.9             h84994c4_1001    conda-forge
wheel                     0.33.4                   py27_0    conda-forge
xorg-kbproto              1.0.7             h14c3975_1002    conda-forge
xorg-libice               1.0.9             h516909a_1004    conda-forge
xorg-libsm                1.2.3             h84519dc_1000    conda-forge
xorg-libx11               1.6.7             h14c3975_1000    conda-forge
xorg-libxau               1.0.9                h14c3975_0    conda-forge
xorg-libxdmcp             1.1.3                h516909a_0    conda-forge
xorg-libxext              1.3.4                h516909a_0    conda-forge
xorg-libxrender           0.9.10            h516909a_1002    conda-forge
xorg-renderproto          0.11.1            h14c3975_1002    conda-forge
xorg-xextproto            7.3.0             h14c3975_1002    conda-forge
xorg-xproto               7.0.31            h14c3975_1007    conda-forge
xz                        5.2.4             h14c3975_1001    conda-forge
zlib                      1.2.11            h14c3975_1004    conda-forge

Details about conda and system ( conda info ):

$ conda info

     active environment : PyFerret
    active env location : /home/merlot/ksmith/miniconda2/envs/PyFerret
            shell level : 2
       user config file : /home/merlot/ksmith/.condarc
 populated config files : 
          conda version : 4.6.14
    conda-build version : not installed
         python version : 2.7.16.final.0
       base environment : /home/merlot/ksmith/miniconda2  (writable)
           channel URLs : https://repo.anaconda.com/pkgs/main/linux-64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/free/linux-64
                          https://repo.anaconda.com/pkgs/free/noarch
                          https://repo.anaconda.com/pkgs/r/linux-64
                          https://repo.anaconda.com/pkgs/r/noarch
          package cache : /home/merlot/ksmith/miniconda2/pkgs
                          /home/merlot/ksmith/.conda/pkgs
       envs directories : /home/merlot/ksmith/miniconda2/envs
                          /home/merlot/ksmith/.conda/envs
               platform : linux-64
             user-agent : conda/4.6.14 requests/2.21.0 CPython/2.7.16 Linux/3.10.0-957.12.2.el7.x86_64 rhel/7.6 glibc/2.17
                UID:GID : 566:100
             netrc file : None
           offline mode : False

PyFerret crashes on Mac OS X Sierra

Hello,

PyFerret crashes on Mac OS X Sierra

• System is Mac OS X 10.12.1

• PyFerret has been installed with conda (4.2.13_py27_0)

conda create --name pyferret
source activate pyferret
conda install -c conda-forge pyferret
conda install -c conda-forge pyferret-data

No other package has been installed in this conda environnement.

PyFerret starts. LIST I[I=1:10] runs smoothly. I type PLOT I[I=1:10], and I see an OS X notification pop-up saying "python. App has leaved in an unpredictable way". And no plot appears. Ferret hangs and I have to kill it.

Anybody having the same problem ? Any idea to make it work ?

Olivier

marti@Spip-~ 👉  conda list
# packages in environment at /Users/marti/anaconda/envs/pyferret:
#
anaconda-client           1.5.4                    py27_0
cairo                     1.12.18                       8    conda-forge
clyent                    1.2.2                    py27_0
curl                      7.49.1                        1    conda-forge
ferret_datasets           7.0.0                    py27_0    conda-forge
fontconfig                2.11.1                        3    conda-forge
freetype                  2.6.3                         1    conda-forge
gettext                   0.19.7                        1    conda-forge
glib                      2.48.0                        4    conda-forge
harfbuzz                  1.0.6                         0    conda-forge
hdf4                      4.2.12                        0    conda-forge
hdf5                      1.8.17                        7    conda-forge
icu                       56.1                          4    conda-forge
jpeg                      9b                            0    conda-forge
libffi                    3.2.1                         2    conda-forge
libgfortran               3.0.0                         0    conda-forge
libiconv                  1.14                          3    conda-forge
libnetcdf                 4.4.1                         0    conda-forge
libpng                    1.6.26                        0    conda-forge
libxml2                   2.9.4                         3    conda-forge
mkl                       11.3.3                        0
netcdf-fortran            4.4.4                         1    conda-forge
numpy                     1.11.2                   py27_0
openssl                   1.0.2j                        0
pango                     1.40.1                        0    conda-forge
pcre                      8.38                          1    conda-forge
pip                       9.0.1                    py27_0
pixman                    0.32.6                        0    conda-forge
pyferret                  7.0.1.dev                py27_5    conda-forge
pyqt                      4.11.4                   py27_1    conda-forge
python                    2.7.12                        1
python-dateutil           2.6.0                    py27_0
pytz                      2016.7                   py27_0
pyyaml                    3.12                     py27_0
qt                        4.8.7                         4
readline                  6.2                           2
requests                  2.11.1                   py27_0
setuptools                27.2.0                   py27_0
sip                       4.18                     py27_0    conda-forge
six                       1.10.0                   py27_0
sqlite                    3.13.0                        0
tk                        8.5.18                        0
wheel                     0.29.0                   py27_0
xz                        5.2.2                         0    conda-forge
yaml                      0.1.6                         0
zlib                      1.2.8                         3

In /Users/marti/Libray/Logs/DiagnosticReports/python2.7_2016-11-24-094102_Spip.crash :

Process:               python2.7 [66552]
Path:                  /Users/USER/*/python
Identifier:            python2.7
Version:               ???
Code Type:             X86-64 (Native)
Parent Process:        python2.7 [66544]
Responsible:           python2.7 [66552]
User ID:               505

Date/Time:             2016-11-24 09:41:00.681 +0100
OS Version:            Mac OS X 10.12.1 (16B2555)
Report Version:        12
Anonymous UUID:        F1CC9E63-0AA8-8858-7D16-6BA7C3A2308C

Sleep/Wake UUID:       D83402A2-18B9-44DF-B8F5-23A7D1E88BF8

Time Awake Since Boot: 100000 seconds
Time Since Wake:       690 seconds

System Integrity Protection: enabled

Crashed Thread:        0  Dispatch queue: com.apple.main-thread

Exception Type:        EXC_BAD_INSTRUCTION (SIGILL)
Exception Codes:       0x0000000000000001, 0x0000000000000000
Exception Note:        EXC_CORPSE_NOTIFY

Termination Signal:    Illegal instruction: 4
Termination Reason:    Namespace SIGNAL, Code 0x4
Terminating Process:   exc handler [0]

Application Specific Information:
BUG IN CLIENT OF LIBDISPATCH: _dispatch_main_queue_callback_4CF called from the wrong thread
crashed on child side of fork pre-exec

Thread 0 Crashed:: Dispatch queue: com.apple.main-thread
0   libdispatch.dylib             	0x00007fffb9dced21 _dispatch_main_queue_callback_4CF + 1291
1   com.apple.CoreFoundation      	0x00007fffa4d6bbe9 __CFRUNLOOP_IS_SERVICING_THE_MAIN_DISPATCH_QUEUE__ + 9
2   com.apple.CoreFoundation      	0x00007fffa4d2d00d __CFRunLoopRun + 2205
3   com.apple.CoreFoundation      	0x00007fffa4d2c514 CFRunLoopRunSpecific + 420
4   com.apple.HIToolbox           	0x00007fffa42c9fbc RunCurrentEventLoopInMode + 240
5   com.apple.HIToolbox           	0x00007fffa42c9df1 ReceiveNextEventCommon + 432
6   com.apple.HIToolbox           	0x00007fffa42c9c26 _BlockUntilNextEventMatchingListInModeWithFilter + 71
7   com.apple.AppKit              	0x00007fffa29b3b79 _DPSNextEvent + 1093
8   com.apple.AppKit              	0x00007fffa30c91c3 -[NSApplication(NSEvent) _nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 1637
9   com.apple.AppKit              	0x00007fffa29a853d -[NSApplication run] + 926
10  libQtGui.4.8.7.dylib          	0x00000001215cfa9f QEventDispatcherMac::processEvents(QFlags<QEventLoop::ProcessEventsFlag>) + 951
11  libQtCore.4.8.7.dylib         	0x0000000120a5c4a8 QEventLoop::exec(QFlags<QEventLoop::ProcessEventsFlag>) + 394
12  libQtCore.4.8.7.dylib         	0x0000000120a5f81b QCoreApplication::exec() + 175
13  QtGui.so                      	0x0000000120fdb360 meth_QApplication_exec_(_object*, _object*) + 80
14  libpython2.7.dylib            	0x00000001000a3302 PyEval_EvalFrameEx + 3730
15  libpython2.7.dylib            	0x00000001000ac913 fast_function + 179
16  libpython2.7.dylib            	0x00000001000a338a PyEval_EvalFrameEx + 3866
17  libpython2.7.dylib            	0x00000001000ac913 fast_function + 179
18  libpython2.7.dylib            	0x00000001000a338a PyEval_EvalFrameEx + 3866
19  libpython2.7.dylib            	0x00000001000ac7dc PyEval_EvalCodeEx + 2092
20  libpython2.7.dylib            	0x0000000100035c1b function_call + 347
21  libpython2.7.dylib            	0x000000010000c761 PyObject_Call + 97
22  libpython2.7.dylib            	0x000000010001e7d7 instancemethod_call + 503
23  libpython2.7.dylib            	0x000000010000c761 PyObject_Call + 97
24  libpython2.7.dylib            	0x000000010006673a slot_tp_init + 106
25  libpython2.7.dylib            	0x0000000100062465 type_call + 229
26  libpython2.7.dylib            	0x000000010000c761 PyObject_Call + 97
27  libpython2.7.dylib            	0x00000001000a35a5 PyEval_EvalFrameEx + 4405
28  libpython2.7.dylib            	0x00000001000ac913 fast_function + 179
29  libpython2.7.dylib            	0x00000001000a338a PyEval_EvalFrameEx + 3866
30  libpython2.7.dylib            	0x00000001000ac7dc PyEval_EvalCodeEx + 2092
31  libpython2.7.dylib            	0x0000000100035c1b function_call + 347
32  libpython2.7.dylib            	0x000000010000c761 PyObject_Call + 97
33  libpython2.7.dylib            	0x000000010001e7d7 instancemethod_call + 503
34  libpython2.7.dylib            	0x000000010000c761 PyObject_Call + 97
35  libpython2.7.dylib            	0x000000010006673a slot_tp_init + 106
36  libpython2.7.dylib            	0x0000000100062465 type_call + 229
37  libpython2.7.dylib            	0x000000010000c761 PyObject_Call + 97
38  libpython2.7.dylib            	0x00000001000a35a5 PyEval_EvalFrameEx + 4405
39  libpython2.7.dylib            	0x00000001000ac913 fast_function + 179
40  libpython2.7.dylib            	0x00000001000a338a PyEval_EvalFrameEx + 3866
41  libpython2.7.dylib            	0x00000001000ac913 fast_function + 179
42  libpython2.7.dylib            	0x00000001000a338a PyEval_EvalFrameEx + 3866
43  libpython2.7.dylib            	0x00000001000ac7dc PyEval_EvalCodeEx + 2092
44  libpython2.7.dylib            	0x0000000100035c1b function_call + 347
45  libpython2.7.dylib            	0x000000010000c761 PyObject_Call + 97
46  libpython2.7.dylib            	0x000000010000cf42 call_function_tail + 98
47  libpython2.7.dylib            	0x000000010000d2aa PyObject_CallMethod + 282
48  libpyferret.so                	0x0000000104058608 grdelWindowCreate + 349
49  libpyferret.so                	0x000000010405a1ad fgdwincreate_ + 39
50  libpyferret.so                	0x000000010405dbff fgd_gopwk_ + 259
51  libpyferret.so                	0x0000000104191489 open_gks_ws_ + 1232
52  libpyferret.so                	0x00000001041939c1 set_gks_metafile_ + 570
53  libpyferret.so                	0x0000000103e0e3c4 pltype_ + 276
54  libpyferret.so                	0x00000001040af2df pplcmd_f_ + 4011
55  libpyferret.so                	0x0000000104182277 pplcmd_c_ + 19
56  libpyferret.so                	0x00000001040adb51 pplcmd_ + 339
57  libpyferret.so                	0x0000000103fd1cf9 send_pltype_ + 433
58  libpyferret.so                	0x0000000103fd88ad start_pplus_ + 436
59  libpyferret.so                	0x00000001041d932e xeq_plot_ + 46
60  libpyferret.so                	0x0000000103df36e0 ferret_dispatch_ + 528
61  libpyferret.so                	0x0000000103e003e1 ferret_dispatch_c + 50
62  libpyferret.so                	0x0000000103de8137 pyferretRunCommand + 253
63  libpython2.7.dylib            	0x00000001000a3302 PyEval_EvalFrameEx + 3730
64  libpython2.7.dylib            	0x00000001000ac7dc PyEval_EvalCodeEx + 2092
65  libpython2.7.dylib            	0x00000001000ac988 fast_function + 296
66  libpython2.7.dylib            	0x00000001000a338a PyEval_EvalFrameEx + 3866
67  libpython2.7.dylib            	0x00000001000ac7dc PyEval_EvalCodeEx + 2092
68  libpython2.7.dylib            	0x00000001000ac988 fast_function + 296
69  libpython2.7.dylib            	0x00000001000a338a PyEval_EvalFrameEx + 3866
70  libpython2.7.dylib            	0x00000001000ac7dc PyEval_EvalCodeEx + 2092
71  libpython2.7.dylib            	0x00000001000ac856 PyEval_EvalCode + 54
72  libpython2.7.dylib            	0x00000001000cb4e9 PyRun_StringFlags + 121
73  libpython2.7.dylib            	0x00000001000cc513 PyRun_SimpleStringFlags + 67
74  libpython2.7.dylib            	0x00000001000dfe9b Py_Main + 2123
75  python                        	0x0000000100000f14 start + 52

Thread 1:
0   libsystem_kernel.dylib        	0x00007fffb9f264e6 __workq_kernreturn + 10
1   libsystem_pthread.dylib       	0x00007fffba00e7b5 _pthread_wqthread + 1426
2   libsystem_pthread.dylib       	0x00007fffba00e211 start_wqthread + 13

Thread 2:
0   libsystem_kernel.dylib        	0x00007fffb9f264e6 __workq_kernreturn + 10
1   libsystem_pthread.dylib       	0x00007fffba00e622 _pthread_wqthread + 1023
2   libsystem_pthread.dylib       	0x00007fffba00e211 start_wqthread + 13

Thread 3:
0   libsystem_kernel.dylib        	0x00007fffb9f264e6 __workq_kernreturn + 10
1   libsystem_pthread.dylib       	0x00007fffba00e622 _pthread_wqthread + 1023
2   libsystem_pthread.dylib       	0x00007fffba00e211 start_wqthread + 13

Thread 4:: Dispatch queue: NSCGSDisableUpdates
0   libsystem_kernel.dylib        	0x00007fffb9f1e41a mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fffb9f1d867 mach_msg + 55
2   com.apple.SkyLight            	0x00007fffb61c3c2c _CGSReenableUpdateForConnectionSync + 99
3   com.apple.SkyLight            	0x00007fffb613d9d8 CGSUpdateManager::enable_update(unsigned long long) + 532
4   libdispatch.dylib             	0x00007fffb9dc9f5f _dispatch_call_block_and_release + 12
5   libdispatch.dylib             	0x00007fffb9dc1128 _dispatch_client_callout + 8
6   libdispatch.dylib             	0x00007fffb9dd7b97 _dispatch_queue_serial_drain + 896
7   libdispatch.dylib             	0x00007fffb9dc9d41 _dispatch_queue_invoke + 1046
8   libdispatch.dylib             	0x00007fffb9dd0158 _dispatch_queue_override_invoke + 369
9   libdispatch.dylib             	0x00007fffb9dc2ee0 _dispatch_root_queue_drain + 476
10  libdispatch.dylib             	0x00007fffb9dc2cb7 _dispatch_worker_thread3 + 99
11  libsystem_pthread.dylib       	0x00007fffba00e736 _pthread_wqthread + 1299
12  libsystem_pthread.dylib       	0x00007fffba00e211 start_wqthread + 13

Thread 5:: com.apple.NSEventThread
0   libsystem_kernel.dylib        	0x00007fffb9f1e41a mach_msg_trap + 10
1   libsystem_kernel.dylib        	0x00007fffb9f1d867 mach_msg + 55
2   com.apple.CoreFoundation      	0x00007fffa4d2d834 __CFRunLoopServiceMachPort + 212
3   com.apple.CoreFoundation      	0x00007fffa4d2ccc1 __CFRunLoopRun + 1361
4   com.apple.CoreFoundation      	0x00007fffa4d2c514 CFRunLoopRunSpecific + 420
5   com.apple.AppKit              	0x00007fffa2b005a0 _NSEventThread + 205
6   libsystem_pthread.dylib       	0x00007fffba00eaab _pthread_body + 180
7   libsystem_pthread.dylib       	0x00007fffba00e9f7 _pthread_start + 286
8   libsystem_pthread.dylib       	0x00007fffba00e221 thread_start + 13

Thread 0 crashed with X86 Thread State (64-bit):
  rax: 0x0000000000000307  rbx: 0x000000012046c400  rcx: 0x00007fffb9dea530  rdx: 0x0000000000000307
  rdi: 0x0000000000000001  rsi: 0x0000000000000006  rbp: 0x00007fff5fbf4410  rsp: 0x00007fff5fbf43a0
   r8: 0x0000000000000040   r9: 0x000000012046c418  r10: 0xffffffffffffffff  r11: 0x0000000000012068
  r12: 0x000000012046c3f0  r13: 0x000000012046c530  r14: 0x00007fffc2ae6a80  r15: 0x0000000101140818
  rip: 0x00007fffb9dced21  rfl: 0x0000000000010202  cr2: 0x00000001215d1e16
  
Logical CPU:     1
Error Code:      0x00000000
Trap Number:     6


Binary Images:
       0x100000000 -        0x100000ff7 +python (???) <BD6512B6-E6EA-37A5-B1BF-6E8D9E38BE51> /Users/USER/*/python
       0x100003000 -        0x100146ff7 +libpython2.7.dylib (2.7) <87FF0E63-058F-3190-A882-8E25F3D889C7> /Users/USER/*/libpython2.7.dylib
       0x1002db000 -        0x1002dcff7 +_locale.so (???) <B66EF5D5-B1EE-3153-9156-48D9A34ABE9C> /Users/USER/*/_locale.so
       0x1002e0000 -        0x1002e2ff7 +readline.so (???) <8A3ABA15-4747-3C1E-8549-A5A0CD9C0736> /Users/USER/*/readline.so
       0x1002e9000 -        0x1002f3ff7 +libffi.6.dylib (7.4) <655E346E-7B92-3879-83B6-DD623D924ADA> /Users/USER/*/libffi.6.dylib
       0x1002f7000 -        0x1002f7fff +libgthread-2.0.0.dylib (4801) <25E052D5-1775-32A0-B08D-CA674B3C6857> /Users/USER/*/libgthread-2.0.0.dylib
       0x1004f0000 -        0x1004f4ff7 +_struct.so (???) <1A2F7308-0C5C-3BF2-87C0-39833CF40486> /Users/USER/*/_struct.so
       0x1004fb000 -        0x1004fcff7 +_heapq.so (???) <B8E4739B-6694-3708-95D6-DFA78C6B2204> /Users/USER/*/_heapq.so
       0x100700000 -        0x100731fff +libreadline.6.2.dylib (6.2) <8B0801EE-2449-E9D6-850B-4E7FB34BF7FB> /Users/USER/*/libreadline.6.2.dylib
       0x100787000 -        0x100799ff7 +libpangocairo-1.0.0.dylib (4001.1) <5C377F0B-7640-33DA-8C5C-C647FE3A5869> /Users/USER/*/libpangocairo-1.0.0.dylib
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       0x1007c5000 -        0x1007e4fff +libhdf5_hl.10.dylib (0) <6E2198A0-27A0-3F1A-B2F2-0CF41B2AF4E3> /Users/USER/*/libhdf5_hl.10.dylib
       0x1007ed000 -        0x1007fbff7 +libintl.8.dylib (10.4) <A33A5375-8567-3AB4-8CBC-07DE85A35AE5> /Users/USER/*/libintl.8.dylib
       0x102000000 -        0x10206dfff +libnetcdff.6.1.1.dylib (6.1.1) <BB8A92A4-DA80-3008-82E7-FA753C14600C> /Users/USER/*/libnetcdff.6.1.1.dylib
       0x102089000 -        0x1020d9fff +libpango-1.0.0.dylib (4001.1) <2A46BC75-A44D-36DE-AFB4-C585AD22150F> /Users/USER/*/libpango-1.0.0.dylib
       0x1020ec000 -        0x102141ff7 +libgobject-2.0.0.dylib (4801) <80055132-6ABB-31EF-8E8D-5728CBDBB9FF> /Users/USER/*/libgobject-2.0.0.dylib
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    0x7fffba045000 -     0x7fffba04affb  libunwind.dylib (35.3) <9F7C2AD8-A9A7-3DE4-828D-B0F0F166AAA0> /usr/lib/system/libunwind.dylib
    0x7fffba04b000 -     0x7fffba074ff7  libxpc.dylib (972.20.3) <85EB25FD-218F-38EE-9E69-391CC8EBE6C5> /usr/lib/system/libxpc.dylib

External Modification Summary:
  Calls made by other processes targeting this process:
    task_for_pid: 0
    thread_create: 0
    thread_set_state: 0
  Calls made by this process:
    task_for_pid: 0
    thread_create: 0
    thread_set_state: 0
  Calls made by all processes on this machine:
    task_for_pid: 60990
    thread_create: 0
    thread_set_state: 0

VM Region Summary:
ReadOnly portion of Libraries: Total=404.5M resident=0K(0%) swapped_out_or_unallocated=404.5M(100%)
Writable regions: Total=390.7M written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=390.7M(100%)
 
                                VIRTUAL   REGION 
REGION TYPE                        SIZE    COUNT (non-coalesced) 
===========                     =======  ======= 
Accelerate framework               384K        2 
Activity Tracing                   256K        2 
CG backing stores                 1404K        2 
CG image                             4K        2 
CoreUI image data                  496K        5 
CoreUI image file                  144K        3 
Dispatch continuations            8192K        2 
Kernel Alloc Once                    8K        2 
MALLOC                            75.5M       60 
MALLOC guard page                   48K       11 
MALLOC_LARGE (reserved)          192.6M        2         reserved VM address space (unallocated)
Memory Tag 242                      12K        2 
Memory Tag 251                    13.3M      707 
STACK GUARD                       56.0M        7 
Stack                             10.5M        7 
VM_ALLOCATE                       8180K      727 
__DATA                           165.7M      327 
__IMAGE                            528K        2 
__LINKEDIT                       133.9M       86 
__TEXT                           270.6M      310 
__UNICODE                          556K        2 
mapped file                       49.4M       39 
shared memory                     16.3M       14 
===========                     =======  ======= 
TOTAL                              1.0G     2300 
TOTAL, minus reserved VM space   811.1M     2300 

Windows builds

@karlmsmith I would like to try ti build pyferret on Windows but I'm not sure what is the best approach. Are you maintaining Windows builds somewhere? Do you use MSVC or may some sort of cygwin/msys2 gcc build toolchain?

@conda-forge-admin, please update circle

@conda-forge-admin, please update circle

Fortran error with tm_fmt.F

Creating a new issue from comments added to the end of issue #14 by @bsenapati-iitkgp

PyFerret was installed from conda (on a Linux system in one known case) using:

conda create -n FERRET -c conda-forge pyferret --yes

Running crashes with the message:

At line 296 of file tm_fmt.F
Internal Error: get_unit(): Bad internal unit KIND

The problem appears to be related to the fortran compiler as this has not been a problem in the past (that bit of code has not changed in a long time) and is not a problem on various other builds of PyFerret. (Will following this with a reply supporting the above assertion.)

Package clim data

I did not check but I don't believe the data is shipped with the package. Maybe we need another package to install it separably. (Similar to what we did for basemap.)

• add data
• automatic env var setting for conda-env.

User with conda installation on RHEL5 hitting readline issue

One of our users, Al, tried installing pyferret using

conda create -n PYFERRET -c conda-forge pyferret --yes

on his existing conda installation on an RHEL5 system. (Hoping this is a way to use the latest PyFerret on his old system.) When he runs, readline complains about the missing symbol PC.

# To activate this environment, use:
# $ source activate PYFERRET
#
# To deactivate this environment, use:
# $ source deactivate
#
[hermannA@afsc-s45 ~]$ source activate PYFERRET
discarding /home/hermannA/anaconda2/bin from PATH
prepending /home/hermannA/anaconda2/envs/PYFERRET/bin to PATH
(PYFERRET)[hermannA@afsc-s45 ~]$ pyferret
Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/home/hermannA/anaconda2/envs/PYFERRET/lib/python2.7/site-packages/pyferret/__init__.py", line 40, in <module>
    import readline
ImportError: /home/hermannA/anaconda2/envs/PYFERRET/lib/python2.7/lib-dynload/../../libreadline.so.6: undefined symbol: PC

This sounds like the issue mentioned in
ContinuumIO/anaconda-issues#152

The solution they mention is to link in the ncurses library when building. FYI - because some of the comments mention the libtinfo.so library - RHEL (and Fedora, I assume) readline has this (weird) libtinfo.so requirement. But their libncurses.so also requires that library. Not that it matters if we are building our own readline and ncurses.

OS X binaries are failing

import libpyferret

ImportError:
dlopen(/Users/ksmith/miniconda2/envs/FERRET/lib/python2.7/site-packages/pyferret/libpyferret.so,
2): Library not loaded: @rpath/libpixman-1.0.dylib

  Referenced from:
/Users/ksmith/miniconda2/envs/FERRET/lib/libpangocairo-1.0.0.dylib

  Reason: no suitable image found.  Did find:

/Users/ksmith/miniconda2/envs/FERRET/lib//libpixman-1.0.dylib: malformed
mach-o image: load command #13 length (0) too small in
/Users/ksmith/miniconda2/envs/FERRET/lib//libpixman-1.0.dylib

/Users/ksmith/miniconda2/envs/FERRET/lib/python2.7/site-packages/pyferret/../../..//libpixman-1.0.dylib:
malformed mach-o image: load command #13 length (0) too small in
/Users/ksmith/miniconda2/envs/FERRET/lib/python2.7/site-packages/pyferret/../../..//libpixman-1.0.dylib

/Users/ksmith/miniconda2/envs/FERRET/lib//libpixman-1.0.dylib: malformed
mach-o image: load command #13 length (0) too small in
/Users/ksmith/miniconda2/envs/FERRET/lib//libpixman-1.0.dylib

/Users/ksmith/miniconda2/envs/FERRET/bin/../lib//libpixman-1.0.dylib:
malformed mach-o image: load command #13 length (0) too small in
/Users/ksmith/miniconda2/envs/FERRET/bin/../lib//libpixman-1.0.dylib

xref: #14 (comment)

libnetcdf.so dependency

I got the following error when running pyferret (on Ubuntu):

Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/home/jswan/anaconda2/pkgs/pyferret-7.0.0-py27_4/lib/python2.7/site-packages/pyferret/__init__.py", line 42, in <module>
    import libpyferret
ImportError: libnetcdf.so.11: cannot open shared object file: No such file or directory

Then I updated libnetcdf, hdf5 and esmf using conda, after which pyferret runs just fine! I'm thinking maybe some dependency is missing from the pyferret recipe.

Call for testing

@emiliom and @PBrockmann I believe you may be interested in helping me test this recipe 😉
I am not a ferret user so I cannot do much beyond some simple plot tests I copied and pasted from the page.

You can install it with,

conda create pyferret -n TEST_ENV -c conda-forge
source activate TEST_ENV

then call the CLI with pyferret.

Note that the ipython magic is also packaged here (also untested).