diff options
| -rw-r--r-- | issues/systems/octopus.gmi | 21 | ||||
| -rw-r--r-- | tasks/machine-room.gmi | 4 | ||||
| -rw-r--r-- | tasks/pjotrp.gmi | 26 |
3 files changed, 35 insertions, 16 deletions
diff --git a/issues/systems/octopus.gmi b/issues/systems/octopus.gmi index bc421eb..c510fd9 100644 --- a/issues/systems/octopus.gmi +++ b/issues/systems/octopus.gmi @@ -1,20 +1,27 @@ # Octopus sysmaintenance +Reopened tasks because of new sheepdog layout and add new machines to Octopus and get fiber optic network going with @andreag. See also + +=> ../../topics/systemtopics/systems/hpcs/hpc/octopus-maintenance + # Tags -* assigned: pjotrp, efraimf, erikg +* assigned: pjotrp, efraimf, erikg, andreag * priority: high -* status: completed, closed +* status: open * type: system administration * keywords: systems, octopus # Tasks -* [X] install sheepdog -* [X] run borg backup -* [X] propagate backup to rabbit -* [X] fix redis updates - use rev tunnel -* [X] check other dirs +* [ ] add lizardfs to nodes +* [ ] add PBS to nodes +* [ ] use fiber optic network +* [ ] install sheepdog +* [ ] run borg backup +* [ ] propagate backup to rabbit +* [ ] fix redis updates - use rev tunnel +* [ ] check other dirs # Info diff --git a/tasks/machine-room.gmi b/tasks/machine-room.gmi index 03905f6..c0e61d1 100644 --- a/tasks/machine-room.gmi +++ b/tasks/machine-room.gmi @@ -11,6 +11,8 @@ ### UTHSC +* [ ] fix www.genenetwork.org and gn2.genenetwork.org https +* [ ] tux02 certbot failing * [ ] get data from summer211.uthsc.edu (access machine room) * [ ] VPN access and FoUT * [ ] penguin2 has 32TB of space we can use on NFS/backups @@ -55,8 +57,10 @@ Security: * [ ] Run GN off balg01 * [X] Firewall out of band +* [ ] Add firewall test to sheepdog * [X] Add storage * [ ] Convert balg02 to Guix server +* [ ] VM for student team ### Done diff --git a/tasks/pjotrp.gmi b/tasks/pjotrp.gmi index c99bf6e..1c42fcb 100644 --- a/tasks/pjotrp.gmi +++ b/tasks/pjotrp.gmi @@ -19,34 +19,42 @@ The tasks here should probably be broken out into appropriately tagged issues, w Now (X=done +=WIP _=kickoff ?=?) * [+] Build leadership team -* [+] Build junior team +* [X] Build junior team * [+] Build GN consortium * [+] gBAM +* [+] Set up stable GeneNetwork server instance with new hardware (see below) * [ ] Complete Octopus setup with Erik, Andrea and Efraim - adding all machines +* [ ] p-value global search + +=> ../issues/systems/octopus + * [ ] GEMMA batch run and precompute -* [ ] GEMMA/bulklmm speedups -* [+] Set up stable GeneNetwork server instance with new hardware (see below) -* [ ] Drive for stability of GN tools (particularly GEMMA OOMP) -* [+] Work on REST API -* [+] AraQTL and WormQTL2 embedding +=> ../issues/gemma/lmm-precomputed-scores + +* [ ] GEMMA/bulklmm speedups * [ ] Add R/qtl2 and multi-parent support with Karl (DO and Magic populations) * [ ] Fix slow search on Mariadb? -* [+] Aging grant application w. Rob (fall) * [+] Shelby's application (fall) * [.] GeneNetwork paper * + [ ] add FAIR statement * [ ] RISC-V trials * [ ] Guix project server +Longer term + +* [+] Aging grant application w. Rob (fall) +* [ ] Drive for stability of GN tools (particularly GEMMA OOMP) +* [+] AraQTL and WormQTL2 embedding +* [+] Work on REST API + Later +* [+] DOI support GN * [+] Tree of life w. Andrea * [ ] Hao's idea for counting cis-qtl * [ ] Improve search for significant and suggestive hits -* [+] DOI support GN (Barcelona) -* [ ] Cito support (Barcelona) * [ ] Include dominance matrix results in gemma (gene expression and transcript isophorms) * [ ] UCSC browser and big wig files * [ ] Jbrowse2 browser |