Mercurial > repos > rv43 > tomo
changeset 37:51dc93d0806a draft
"planemo upload for repository https://github.com/rolfverberg/galaxytools commit 87acf8a257d5d51cf249de085e555bb11d1dbd88"
| author | rv43 |
|---|---|
| date | Tue, 19 Apr 2022 18:13:10 +0000 |
| parents | 7ffde31e1e07 |
| children | c09b8ee8f68f |
| files | tomo.py |
| diffstat | 1 files changed, 7 insertions(+), 4 deletions(-) [+] |
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--- a/tomo.py Tue Apr 19 18:03:03 2022 +0000 +++ b/tomo.py Tue Apr 19 18:13:10 2022 +0000 @@ -1147,7 +1147,7 @@ recon_sinogram = spi.gaussian_filter(recon_sinogram, 0.5) recon_clean = np.expand_dims(recon_sinogram, axis=0) del recon_sinogram - logging.info('tomopy.misc.corr.remove_ring start') + logging.info(f'tomopy.misc.corr.remove_ring start on {num_core} cores') recon_clean = tomopy.misc.corr.remove_ring(recon_clean, rwidth=17, ncore=num_core) logging.info('tomopy.misc.corr.remove_ring end') logging.debug(f'filtering and removing ring artifact took {time()-t0:.2f} seconds!') @@ -1185,9 +1185,12 @@ center = sinogram.shape[1]/2 # try automatic center finding routines for initial value - logging.info('tomopy.find_center_vo start') - #tomo_center = tomopy.find_center_vo(sinogram, ncore=num_core) - tomo_center = tomopy.find_center_vo(sinogram, ncore=1) + if num_core > 24: + logging.info('tomopy.find_center_vo start on 24 cores') + tomo_center = tomopy.find_center_vo(sinogram, ncore=24) + else: + logging.info(f'tomopy.find_center_vo start on {num_core} cores') + tomo_center = tomopy.find_center_vo(sinogram, ncore=num_core) logging.info('tomopy.find_center_vo end') center_offset_vo = tomo_center-center if self.test_mode: