From 3b80a653b13662df3d7b0422ff67814aac96942d Mon Sep 17 00:00:00 2001
From: ameyner2 <alison.meynert@ed.ac.uk>
Date: Wed, 6 Oct 2021 07:29:04 +0100
Subject: [PATCH] Fixed formatting
---
docs/run-notes/19373_run_notes.md | 6 ++++++
1 file changed, 6 insertions(+)
diff --git a/docs/run-notes/19373_run_notes.md b/docs/run-notes/19373_run_notes.md
index 7b81532..3a233a5 100644
--- a/docs/run-notes/19373_run_notes.md
+++ b/docs/run-notes/19373_run_notes.md
@@ -6,10 +6,13 @@ Urgent sequencing run on NextSeq 2000 from CRF
## Set up
+```
git reset --hard 06a48fb115f1a446a2b855cfa96d3b59bedf06bf
+```
Changed father for 20211005_Ansari_Morad_19373_438214 to unaffected in params family PED file
+```
export SOURCE_DIR=/scratch/u035/project/trio_whole_exome/analysis/output
export BATCH_ID=20211005_Ansari_Morad
export BATCH_NUM=20211005
@@ -18,11 +21,13 @@ export VERSION_N=v1
export PROJECT_ID=20211006_19373
export SOURCE_DIR=${SOURCE_DIR}/${VERSION_N}_${BATCH_NUM}
/home/u035/project/scripts/NHS_WES_trio_setup.sh &> v1_20211005_Ansari_Morad.NHS_WES_trio_setup.log
+```
DECIPHER_INTERNAL_IDs.txt created manually from Excel sheet from Morad
## Trio prioritization
+```
SOURCE_DIR=/scratch/u035/project/trio_whole_exome/analysis/output
BATCH_ID=20211005_Ansari_Morad
BATCH_NUM=20211005
@@ -31,6 +36,7 @@ VERSION_N=v1
PROJECT_ID=20211006_19373
qsub -v SOURCE_DIR=${SOURCE_DIR}/${VERSION_N}_${BATCH_NUM},BATCH_ID=${BATCH_ID},PLATE_ID=${PLATE_ID},PROJECT_ID=${PROJECT_ID},VERSION_N=${VERSION_N} -J 1-4 /home/u035/project/scripts/process_NHS_WES_trio.sh
+```
## IGV snapshots
--
GitLab