Changes between Initial Version and Version 1 of Dev2022-8-8

Timestamp:

Aug 8, 2022, 4:19:42 PM (3 years ago)

Author:

Tom Goddard

Comment:

--

Dev2022-8-8

@@ +1 @@
+= ChimeraX Developer Meeting =
+
+Attendance: Eric, Zach, Tom (late), Greg
+
+August 1, 2022
+
+= Agenda =
+
+* Remilestone or close 1.5 roadmap tickets
+* Update !PyPi prerequisites
+* Make installing on the Mac more obvious
+  * More download Notes?
+  * README in .dmg?
+* Updating Linux compilers from CentOS7 for ISOLDE
+* Github Actions continuous integration
+* Mac M1 port
+
+--------------------------
+= Discussion =
+
+I joined the meeting late at 2:30 so missed first half hour discussion.  Tom
+
+* Move developer meetings to Monday 3 pm
+  - Tom never comes on time at 2 pm (right after lunch)
+  - We will try meeting at 3 pm.
+  - Tom on vacation next week.
+
+* AmberTools compile on Rocky 8
+  - Daily Linux build not working due to AmberTools
+  - Renamed centos7 binary prereq on plato to rocky8
+  - See if tonight's ChimeraX Linux build works
+
+* Mac universal build
+  - Will Toolshed handle ARM vs Intel Mac wheels?  Greg says probably yes.
+  - Should put Mac universal build as techpreview before replacing daily build.
+
+* Mac universal wheels
+  - Zach says bundle builder makes universal wheel but puts arm64 in name instead of "universal2"
+  - Greg thinks updating packaging PyPi package may fix it.
+
+* Outdated prereqs email
+  - Outdated prereqs email is wrong  because it is using old CentOS 7 ChimeraX on plato.
+  - Greg is making the outdated notice use Rocky 8 ChimeraX run under singularity.
+
+* New AlphaFold database for BLAST
+  - Tom says new alphafold database (214 million sequences) built and tested on plato.
+  - ChimeraX 1.4 needs to keep using old database version 2.
+  - Zach says BLAST tool client code passes the database version to use with queries.
+  - May just need to make put the new v3 database on plato to have it working.
+
+--------------------------
+= Action Items =
+  - Update Linux base system from CentOS 7 to Debian 10 or equivalent. Greg
+  - Provide Singularity image of compiler environment.  Greg
+  - Present github continuous integration tutorial.  Zach
+
+== General ==
+
+== ChimeraX ==
+=== General ===
+
+=== Build System ===
+1) Supporting IDEs
+  - may only need editable installs (will require workaround as namespace packages cannot be installed in this mode automatically)
+  - editable installs should also let us call ChimeraX with Python for rapid iteration and the C launcher for detailed crash info
+  - Zach mentioned PyCharm, LSP (Language Server Protocol), XCode
+  - Greg mentioned Visual Studio 
+
+2) API for getting C headers: get_include (see: numpy.get_include)
+  - {{{native-packaging}}} moves bundle header and source files to {{{bundle/src/include/module}}} \
+  - maybe just use header files?
+
+3) API for getting library directories: get_libdir
+
+4) macOS compiler call in Makefiles
+
+=== Infrastructure ===
+1) Beta releases on Toolshed
+
+2) Decoupling core bundle version number from the ChimeraX release number
+
+3) Prereq audit after 27 June 
+
+4) arm64 port
+
+== Chimera ==
+1) Back up the build machine to a solid state drive