Changes between Initial Version and Version 1 of 2017-07-27


Ignore:
Timestamp:
Jul 27, 2017, 3:34:06 PM (8 years ago)
Author:
Conrad Huang
Comment:

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  • 2017-07-27

    v1 v1  
     1= Attendees =
     2
     3* Conrad, Elaine, Eric, Greg, TomG, TomF
     4
     5= Agenda =
     6* Review action items from 7/6 meeting
     7* ChimeraX paper
     8* Changing Windows build machine
     9* Yet another new bundle building change
     10* Sessions: msgpack vs pickle
     11* Chimera 1 fetching vs SSL certificate on Windows
     12* ChimeraX alpha 2 release?
     13* Next meeting: Chimera 1.12 release?
     14* Next meeting: Who will develop mmCIF writer?
     15* Next meeting: ChimeraX on Github
     16
     17= Discussion =
     18* ChimeraX paper
     19  - TomF reading final proof, which looks good
     20* Changing Windows build machine
     21  - Greg moved daily builds from ''vive'' (VR machine) to ''snow'' (Greg's Core i3 desktop)
     22* Yet another new bundle building change
     23  - Works for daily build
     24  - Conrad needs to update sample code
     25* Sessions: msgpack vs pickle
     26{{{
     27                           3xf5     1tr4    5ijn     3j3q
     28    number of atoms        3687    68540  594304  2440800
     29    file size (MB)          0.7      6.6      80      254
     30
     31    compressed pickle     0.041     0.25    1.67     8.24
     32        \ file size        144K     1.6M     14M      54M
     33        \ save time         .12      1.3     9.5     30.5
     34    uncompressed pickle   0.039     0.21    1.30     6.85
     35        \ file size        652K      11M     96M     379M
     36        \ save time        0.04      .18     1.4     11.4
     37    for compressed files:
     38      deserialize data    12.2%    33.4%   56.0%    52.1%
     39      resolve reference   15.1%    17.6%    1.6%     0.1%
     40      restore data        13.2%    34.1%   40.4%    47.4%
     41
     42    compressed msgpack    0.040     0.22    1.49     7.17
     43         \ file size       143K     1.6M     14M      54M
     44         \ save time       0.13      1.4     9.7     31.8
     45    uncompressed msgpack  0.038     0.18    1.14     5.82
     46         \ file size       628K      10M     93M     366M
     47         \ save time       0.06      0.2     1.7     12.1
     48    for compressed files:
     49      deserialize data     6.2%    28.3%   48.1%    42.7%
     50      resolve references  14.8%    17.2%    1.7%     0.1%
     51      restore data        13.8%    33.3%   47.4%    56.5%
     52
     53    msgpack % faster       2.5%      14%     12%      15%
     54}}}
     55  - Switch to msgpack as default and test.  If successful, make msgpack the default.
     56* Chimera 1 fetching vs SSL certificate on Windows
     57  - Works in 1.10 (Greg yes, TomG maybe)
     58  - Fails on 1.11.2, unable to verify certificate
     59  - More testing is needed.  Test pdb.org vs rcsb.org.
     60* ChimeraX alpha 2 release?
     61  - Check back in a week.
     62
     63= Action Items =
     64* Greg: More testing is needed.  Test pdb.org vs rcsb.org.
     65* All: Go through tickets and assign alpha2 milestone to important defect tickets
     66* Conrad will continue working on ribbon tickets
     67* Conrad will investigate implementing the "like" operator
     68 - e.g., to specify polymer in atomspec
     69* Scooter will investigate making tickets public (possibly marking some tickets private)