87586a71c52ad59bc437786485e7e900cae367ee hiram Mon Feb 24 07:19:52 2025 -0800 up to date error checking refs #35201 diff --git src/hg/makeDb/doc/asmHubs/README.txt src/hg/makeDb/doc/asmHubs/README.txt index 19c4476d9e7..6a1984e5cec 100644 --- src/hg/makeDb/doc/asmHubs/README.txt +++ src/hg/makeDb/doc/asmHubs/README.txt @@ -91,41 +91,42 @@ echo GCF_002776525.5_ASM277652v5 | ../asmHubs/commonNames.pl /dev/stdin GCF_002776525.5_ASM277652v5 Ugandan red Colobus (RC106 2019) Keep the list in order by the second column case insensitive. These common names will be the pull-down menu list in the browser to select a genome from this group. Make the common name unique so there is something the user can see that they can identify as the assembly they want to use. Extra credit: if your new build is an updated version of that genome assembly, move the old one out of this orderList.txt into ../legacyAsmHub/legacy.orderList.txt Same procedures there to push out that group. 5. Prepare the build for the push. In this primatesAsmHub directory: time (make) > dbg 2>&1 This could stop prematurely if errors are encountered, to verify - when done, check for errors: grep -i err dbg + when done, check for errors: egrep -i "error|fail|missing|cannot" dbg should be nothing significant 6. Verify the browser is correct on hgwdev: time (makeVerifyTestDownload) >> test.down.log 2>&1 should finish with an all clear line, no failures: # checked 58 hubs, 58 success, 0 fail, total tracks: 1188, 2023-02-15 13:48:07 7. Push the hub to hgdownload (and dynamic blat server): time (make sendDownload) >> send.down.log 2>&1 - should stop if there are errors. Can verify: grep -i error send.down.log + should stop if there are errors. Can verify: + egrep -i "error|fail|missing|cannot" send.down.log 8. Verify the hub is correctly on hgdownload: time (make verifyDownload) >> verify.down.log 2>&1 should finish with an all clear line, no failures: # checked 58 hubs, 58 success, 0 fail, total tracks: 1188, 2023-02-15 13:58:02 9. Verify the hub appears in the browser: https://genome.ucsc.edu/h/GCF_002776525.5 Extra historical discussion included below. ############################################################################# ############################################################################# ### see below for adding custom/local developed tracks to an existing GenArk hub #############################################################################