Mercurial > repos > rv43 > tomo

annotate run_tomo_reconstruct @ 70:97c4e2cbbad9 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 b891edb4a5881959112ff276f7696bbc36dcea33
author rv43
date Fri, 10 Mar 2023 16:39:22 +0000
parents fba792d5f83b
children 1cf15b61cd83
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
69
fba792d5f83b planemo upload for repository https://github.com/rolfverberg/galaxytools commit ab9f412c362a4ab986d00e21d5185cfcf82485c1
rv43
parents:
diff changeset
1 #!/bin/bash
fba792d5f83b planemo upload for repository https://github.com/rolfverberg/galaxytools commit ab9f412c362a4ab986d00e21d5185cfcf82485c1
rv43
parents:
diff changeset
2
fba792d5f83b planemo upload for repository https://github.com/rolfverberg/galaxytools commit ab9f412c362a4ab986d00e21d5185cfcf82485c1
rv43
parents:
diff changeset
3 # From workflow
fba792d5f83b planemo upload for repository https://github.com/rolfverberg/galaxytools commit ab9f412c362a4ab986d00e21d5185cfcf82485c1
rv43
parents:
diff changeset
4 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
fba792d5f83b planemo upload for repository https://github.com/rolfverberg/galaxytools commit ab9f412c362a4ab986d00e21d5185cfcf82485c1
rv43
parents:
diff changeset
5
fba792d5f83b planemo upload for repository https://github.com/rolfverberg/galaxytools commit ab9f412c362a4ab986d00e21d5185cfcf82485c1
rv43
parents:
diff changeset
6 # As Galaxy tool:
fba792d5f83b planemo upload for repository https://github.com/rolfverberg/galaxytools commit ab9f412c362a4ab986d00e21d5185cfcf82485c1
rv43
parents:
diff changeset
7 #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
fba792d5f83b planemo upload for repository https://github.com/rolfverberg/galaxytools commit ab9f412c362a4ab986d00e21d5185cfcf82485c1
rv43
parents:
diff changeset
8 #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
fba792d5f83b planemo upload for repository https://github.com/rolfverberg/galaxytools commit ab9f412c362a4ab986d00e21d5185cfcf82485c1
rv43
parents:
diff changeset
9 #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