update autoPROC

autoPROC/README.md

@@ -3,8 +3,16 @@
 autoPROC (Global Phasing Ltd.) is an automated pipeline for integrating and scaling
 macromolecular crystallography diffraction data. It is licence-gated: the PSI licence
 token is committed as `autoPROC/.licence` and installed into the software tree at build
-time. CCP4 8.0 and XDS are hard runtime requirements and are pulled in as module
-dependencies.
+time.
+
+Runtime deps follow the GPhL CentOS8/RHEL8 install doc
+(https://www.globalphasing.com/autoproc/manual/installation/CentOS8_64bit/index.html):
+CCP4 8.0 and XDS are absolute requirements, ImageMagick is "highly
+recommended" for full functionality. All three come in as
+`runtime_deps` (`xds/20260616`, `ccp4/8.0`, `ImageMagick/7.1.2-30`) —
+the module-load equivalent of the doc's `.bashrc` recipe (source
+setup.sh + CCP4 setup + XDS on PATH). The doc's `autoPROC_latest`
+symlink trick is not needed: Pmodules versioning covers it.
 
 ## Build on Ra
 
@@ -59,5 +67,17 @@ process -h
 - If loading the module fails with `... : unbound variable` (setup.sh under `set -u`),
   add `puts stdout "set +x nounset"` before the `source` line in `modulefile` (same fix
   used for phenix).
-- There is no `ccp4` module in this repo; `runtime_deps` references a site CCP4 module.
-  Set the exact name/version from `module avail ccp4`.
+- `runtime_deps` must reference module versions that exist on Ra: check with
+  `module avail xds ccp4 ImageMagick` after an XDS/CCP4 update and adjust.
+- ImageMagick/7.1.2-30 is still `unstable`; promote it to stable before promoting
+  autoPROC (a stable module may only depend on stable modules).
+
+## Updating runtime_deps without a rebuild
+
+`runtime_deps` land in the generated modulefile, so after editing
+`files/config.yaml`:
+
+```
+modbuild build --update-modulefiles 20240710
+module use MX unstable && module load autoPROC/20240710   # should auto-load xds, ccp4, ImageMagick
+```