From 03e3bb1b9c8c214250f47908671f912dd30641d9 Mon Sep 17 00:00:00 2001
From: Pjotr Prins
Date: Tue, 31 Oct 2023 11:44:27 +0100
Subject: Tasks

---
 issues/systems/octopus.gmi | 21 ++++++++++++++-------
 tasks/machine-room.gmi     |  4 ++++
 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
-- 
cgit v1.2.3