Changes between Initial Version and Version 1 of Ticket #2013, comment 3


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Timestamp:
Jun 19, 2019, 12:19:33 PM (6 years ago)
Author:
Conrad Huang

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  • Ticket #2013, comment 3

    initial v1  
    44In the machine used for the creation of the bundle there was no problem because we installed manually the Pyyaml package, so we didn't any tests with it.
    55
    6 ________________________________
    7 De: ChimeraX <ChimeraX-bugs-admin@cgl.ucsf.edu>
    8 Enviado: miércoles, 19 de junio de 2019 19:23
    9 Cc: andresgineranton@outlook.com; conrad@cgl.ucsf.edu
    10 Asunto: Re: [ChimeraX] #2013: Trouble pip-installing Pyyaml prereq for bundle
    11 
    12 #2013: Trouble pip-installing Pyyaml prereq for bundle
    13 -----------------------------------------+----------------------
    14           Reporter:  andresgineranton@…  |      Owner:  conrad
    15               Type:  defect              |     Status:  feedback
    16           Priority:  normal              |  Milestone:  0.91
    17          Component:  Tool Shed           |    Version:
    18         Resolution:                      |   Keywords:
    19         Blocked By:                      |   Blocking:
    20 Notify when closed:                      |   Platform:  all
    21            Project:  ChimeraX            |
    22 -----------------------------------------+----------------------
    23 Changes (by conrad):
    24 
    25  * status:  assigned => feedback
    26 
    27 
    28 Comment:
    29 
    30  Using the supplied bundle_info.xml, I created an empty bundle and tried to
    31  install it using ChimeraX built from the latest source on a Windows 10
    32  machine.  The output is attached below and seems to indicate that
    33  everything worked as expected.  (This is the platform I do most of my
    34  development on, so it's not surprising that it worked here.)
    35 
    36  Which version of ChimeraX and what platform were you using, and what
    37  commands did you use to build/install your bundle?
    38 
    39  {{{
    40  $ ls -lR
    41  .:
    42  total 4
    43  -rwx------+ 1 conrad None 2083 Jun 19 09:49 bundle_info.xml*
    44  drwxr-xr-x+ 1 conrad None    0 Jun 19 10:19 src/
    45 
    46  ./src:
    47  total 0
    48  -rw-r--r--+ 1 conrad None 0 Jun 19 10:07 __init__.py
    49  drwxr-xr-x+ 1 conrad None 0 Jun 19 10:07 docs/
    50 
    51  ./src/docs:
    52  total 0
    53  drwxr-xr-x+ 1 conrad None 0 Jun 19 10:07 user/
    54 
    55  ./src/docs/user:
    56  total 0
    57  drwxr-xr-x+ 1 conrad None 0 Jun 19 10:08 tools/
    58 
    59  ./src/docs/user/tools:
    60  total 0
    61  -rw-r--r--+ 1 conrad None 0 Jun 19 10:08 guide.html
    62 
    63 
    64  $ /d/chimerax/ChimeraX.app/bin/ChimeraX.exe -m pip list
    65  Package                       Version
    66  ----------------------------- -----------
    67  alabaster                     0.7.12
    68  appdirs                       1.4.3
    69  [...]
    70  ChimeraX-FileHistory          1.0
    71  ChimeraX-gltf                 1.0
    72  ChimeraX-Hbonds               1.0
    73  ChimeraX-Help                 0.9a1
    74  [...]
    75  pycollada                     0.6
    76  pydicom                       1.2.2
    77  Pygments                      2.4.2
    78  PyOpenGL                      3.1.3b2
    79  PyOpenGL-accelerate           3.1.3b2
    80  pyparsing                     2.4.0
    81  PyQt5-commercial              5.12.2
    82  PyQt5-sip                     4.19.17
    83  PyQtWebEngine-commercial      5.12.1
    84  python-dateutil               2.8.0
    85  pytz                          2019.1
    86  pyzmq                         18.0.1
    87  [...]
    88  webcolors                     1.9.1
    89  wheel                         0.33.4
    90 
    91 
    92  $ /d/chimerax/ChimeraX.app/bin/ChimeraX.exe --nogui --safemode --exit
    93  --cmd "devel install ."
    94  INFO:
    95  Executing: devel install .
    96  running build
    97  running build_py
    98  creating build
    99  creating build\lib
    100  creating build\lib\chimerax
    101  creating build\lib\chimerax\gaudiviewx
    102  copying src\__init__.py -> build\lib\chimerax\gaudiviewx
    103  creating build\lib\chimerax\gaudiviewx\docs
    104  creating build\lib\chimerax\gaudiviewx\docs\user
    105  creating build\lib\chimerax\gaudiviewx\docs\user\tools
    106  copying src\docs\user\tools\guide.html ->
    107  build\lib\chimerax\gaudiviewx\docs\user\tools
    108  running test
    109  Searching for Pyyaml>=5.0
    110  Best match: pyyaml 5.1.1
    111  Processing pyyaml-5.1.1-py3.7-win-amd64.egg
    112 
    113  Using d:\home\conrad\tmp\tbundle\.eggs\pyyaml-5.1.1-py3.7-win-amd64.egg
    114  running egg_info
    115  creating ChimeraX_GaudiViewX.egg-info
    116  writing ChimeraX_GaudiViewX.egg-info\PKG-INFO
    117  writing dependency_links to ChimeraX_GaudiViewX.egg-
    118  info\dependency_links.txt
    119  writing requirements to ChimeraX_GaudiViewX.egg-info\requires.txt
    120  writing top-level names to ChimeraX_GaudiViewX.egg-info\top_level.txt
    121  writing manifest file 'ChimeraX_GaudiViewX.egg-info\SOURCES.txt'
    122  reading manifest file 'ChimeraX_GaudiViewX.egg-info\SOURCES.txt'
    123  writing manifest file 'ChimeraX_GaudiViewX.egg-info\SOURCES.txt'
    124  running build_ext
    125  running bdist_wheel
    126  installing to build\bdist.win-amd64\wheel
    127  running install
    128  running install_lib
    129  creating build\bdist.win-amd64
    130  creating build\bdist.win-amd64\wheel
    131  creating build\bdist.win-amd64\wheel\chimerax
    132  creating build\bdist.win-amd64\wheel\chimerax\gaudiviewx
    133  creating build\bdist.win-amd64\wheel\chimerax\gaudiviewx\docs
    134  creating build\bdist.win-amd64\wheel\chimerax\gaudiviewx\docs\user
    135  creating build\bdist.win-amd64\wheel\chimerax\gaudiviewx\docs\user\tools
    136  copying build\lib\chimerax\gaudiviewx\docs\user\tools\guide.html ->
    137  build\bdist.win-amd64\wheel\.\chimerax\gaudiviewx\docs\user\tools
    138  copying build\lib\chimerax\gaudiviewx\__init__.py -> build\bdist.win-
    139  amd64\wheel\.\chimerax\gaudiviewx
    140  running install_egg_info
    141  Copying ChimeraX_GaudiViewX.egg-info to build\bdist.win-
    142  amd64\wheel\.\ChimeraX_GaudiViewX-0.5-py3.7.egg-info
    143  running install_scripts
    144  creating build\bdist.win-amd64\wheel\ChimeraX_GaudiViewX-0.5.dist-
    145  info\WHEEL
    146  creating 'dist\ChimeraX_GaudiViewX-0.5-py3-none-any.whl' and adding
    147  'build\bdist.win-amd64\wheel' to it
    148  adding 'chimerax/gaudiviewx/__init__.py'
    149  adding 'chimerax/gaudiviewx/docs/user/tools/guide.html'
    150  adding 'ChimeraX_GaudiViewX-0.5.dist-info/METADATA'
    151  adding 'ChimeraX_GaudiViewX-0.5.dist-info/WHEEL'
    152  adding 'ChimeraX_GaudiViewX-0.5.dist-info/top_level.txt'
    153  adding 'ChimeraX_GaudiViewX-0.5.dist-info/RECORD'
    154  removing build\bdist.win-amd64\wheel
    155  Distribution is in .\dist\ChimeraX_GaudiViewX-0.5-py3-none-any.whl
    156  INFO:
    157  Executing: toolshed install ".\\dist\\ChimeraX_GaudiViewX-0.5-py3-none-
    158  any.whl"
    159  Successfully installed ChimeraX-GaudiViewX-0.5 Pyyaml-5.1.1
    160  Installed ChimeraX-GaudiViewX (0.5)
    161 
    162  INFO:
    163  UCSF ChimeraX version: 0.91 (2019-06-19)
    164  INFO:
    165  © 2016-2019 Regents of the University of California.  All rights reserved.
    166  0.00% done: Initializing core
    167  50.00% done: Initializing bundles
    168 
    169  ----------------------------------------------------------------------
    170  Ran 0 tests in 0.000s
    171 
    172  OK
    173  100.00% done: Finished initialization
    174 
    175 
    176  $ /d/chimerax/ChimeraX.app/bin/ChimeraX.exe -m pip list
    177  Package                       Version
    178  ----------------------------- -----------
    179  alabaster                     0.7.12
    180  appdirs                       1.4.3
    181  [...]
    182  ChimeraX-FileHistory          1.0
    183  ChimeraX-GaudiViewX           0.5
    184  ChimeraX-gltf                 1.0
    185  ChimeraX-Hbonds               1.0
    186  ChimeraX-Help                 0.9a1
    187  [...]
    188  pycollada                     0.6
    189  pydicom                       1.2.2
    190  Pygments                      2.4.2
    191  PyOpenGL                      3.1.3b2
    192  PyOpenGL-accelerate           3.1.3b2
    193  pyparsing                     2.4.0
    194  PyQt5-commercial              5.12.2
    195  PyQt5-sip                     4.19.17
    196  PyQtWebEngine-commercial      5.12.1
    197  python-dateutil               2.8.0
    198  pytz                          2019.1
    199  PyYAML                        5.1.1
    200  pyzmq                         18.0.1
    201  [...]
    202  webcolors                     1.9.1
    203  wheel                         0.33.4
    204 
    205  }}}
    206 
    207 --
    208 Ticket URL: <https://plato.cgl.ucsf.edu/trac/ChimeraX/ticket/2013#comment:2>
    209 ChimeraX <http://www.rbvi.ucsf.edu/chimerax/>
    210 ChimeraX Issue Tracker
    211 }}}