a75fa5b90024f61cc20c36877880267eb60c7bb4 hiram Fri Nov 7 12:53:15 2025 -0800 indicate the newer minimal build procedure refs #29545 diff --git src/hg/makeDb/doc/asmHubs/README.txt src/hg/makeDb/doc/asmHubs/README.txt index 6a1984e5cec..a0890b17e57 100644 --- src/hg/makeDb/doc/asmHubs/README.txt +++ src/hg/makeDb/doc/asmHubs/README.txt @@ -1,15 +1,36 @@ +############################################################################# +# Update 2025-11-07 +############################################################################# + +Since the orderList.tsv listings have become very large, it has +become inconveniently time consuming to run through the standard +process as described below. There is a newer 'minimal build' procedure +in use now that can save a lot of time. + +At the point where you have added your new assembly to the orderList.tsv +file, instead of running through the full sequence of make commands +for the entire clade set you are working on, go to the clade directory and +run: + + time (../asmHubs/minimalBuild.sh) > minimal.log 2>&1 + +and that script will run the make commands on only the new assemblies +in the orderList.tsv. It still takes a long time (hours) to do part of that +job when it is making up the clade index.html files, but much of the +time consuming working through every assembly in the list is eliminated. + ############################################################################# ### Building the GenArk assembly hubs ### ############################################################################# ### Requests from the request system: When a user sends in a request with an accession ID, e.g.: GCF_002776525.5 the assembly may already exist in some version. To check if something already exists, use just the number part of the ID: 002776525 and check the existing listings in the source tree: grep 002776525 ~/kent/src/hg/makeDb/doc/*AsmHub/*.tsv They may be asking for a newer version, or they may be asking for a GenBank version when a RefSeq version already exists. Can decide if what we have is better than what they ask for. True, sometimes they