Mercurial > repos > rv43 > chess_tomo

diff run_tomo_reconstruct @ 33:50923144fb56 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/rolfverberg/galaxytools commit f8c4bdb31c20c468045ad5e6eb255a293244bc6c
author rv43
date Wed, 22 Mar 2023 16:46:26 +0000
parents
children
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/run_tomo_reconstruct	Wed Mar 22 16:46:26 2023 +0000
@@ -0,0 +1,11 @@
+#!/bin/bash
+
+# From workflow
+#python -m workflow run_tomo -i sobhani-3249-A_reduce.nxs -c sobhani-3249-A_centers.yaml -o sobhani-3249-A_recon.nxs -n 48 -s 'only' --reconstruct_data
+#python -m workflow run_tomo -i tenstom_1304r-1_one_stack_reduce.nxs -c tenstom_1304r-1_one_stack_centers.yaml -o tenstom_1304r-1_one_stack_recon.nxs -n 48 -s 'only' --reconstruct_data
+#python -m workflow run_tomo -i tenstom_1304r-1_reduce.nxs -c tenstom_1304r-1_centers.yaml -o tenstom_1304r-1_recon.nxs -n 48 -s 'only' --reconstruct_data
+
+# As Galaxy tool:
+#python tomo_reconstruct.py -i sobhani-3249-A_reduce.nxs -c sobhani-3249-A_centers.yaml -o sobhani-3249-A_recon.nxs --log_level INFO -l tomo.log --galaxy_flag --x_bounds 650 1050 --y_bounds 270 1430
+#python tomo_reconstruct.py -i tenstom_1304r-1_one_stack_reduce.nxs -c tenstom_1304r-1_one_stack_centers.yaml -o tenstom_1304r-1_one_stack_recon.nxs --log_level INFO -l tomo.log --galaxy_flag --x_bounds 629 1450 --y_bounds 606 1468
+python tomo_reconstruct.py -i tenstom_1304r-1_reduce.nxs -c tenstom_1304r-1_centers.yaml -o tenstom_1304r-1_recon.nxs --log_level INFO -l tomo.log --galaxy_flag --x_bounds 629 1450 --y_bounds 606 1468