Closed philipmac closed 2 years ago
Note, all files in this sample look wrong.
get mrc intermediate files (for Brad) look at movies - ensure they are ok
tilt movie seemed OK _rec movie did not look OK.
header of reconstr mrc file in question (GZH-004_rec.mrc)
RO image file on unit 1 : GZH-004_rec.mrc Size= 8953808 K
Number of columns, rows, sections ..... 4092 5760 389
Map mode .............................. 0 (bytes - signed in file)
Start cols, rows, sects, grid x,y,z ... 0 0 0 4092 5760 389
Pixel spacing (Angstroms).............. 10.51 10.51 10.51
Cell angles ........................... 90.000 90.000 90.000
Fast, medium, slow axes ............... X Y Z
Origin on x,y,z ..(inverted_in_file_).. -8765. 8765. 1934.
Minimum density ....................... 0.0000 ( -128.00 in file)
Maximum density ....................... 255.00 ( 127.00 in file)
Mean density .......................... 131.08 ( 3.0810 in file)
tilt angles (original,current) ........ 90.0 0.0 0.0 0.0 0.0 0.0
Space group,# extra bytes,idtype,lens . 1 0 0 0
7 Titles :
SerialEM: Titan Krios D3197 at RML/NIAID/NIH 27-Apr-22 15:25:35
Tilt axis angle = 86.1, binning = 1 spot = 3 camera = 2
CCDERASER: Bad points replaced with interpolated values 8-Sep-22 12:30:51
NEWSTACK: Images copied, transformed 8-Sep-22 12:41:21
TILT: Tomographic reconstruction 08-Sep-22 12:43:24
NEWSTACK: Images copied , densities scaled 8-Sep-22 13:21:59
clip: rotx - rotation by -90 around X 08-Sep-22 13:23:17
currently workin
ai-fas12\RMLEMHedwigQA\Projects\RTB\efischer\hansenbry-2021-0317-NIAID-QA\TEM-Tomo-2021-0317-MarchQA\Sept8Test/GZH-001
looks like: https://hedwig2qa.niaid.nih.gov/neuroglancer/UmVjb3JkOjE1OTIwNQ==
should look like https://hedwig.niaid.nih.gov/#/neuroglancer?layerSource=precomputed:%2F%2Fhttps:%2F%2Fai-rmlhedwigsrvprd1.niaid.nih.gov%2Fv3%2F_api%2Fstorage%2Ffile%2F%255Cexport%255Cprd%255CAssets%255CLPD%255Cgriggm%255Ccarneiroalvesev-2022-0314-Tritrichomonas_musculus_protist%255CTEM-Tomo-2022-0314-GZH-Tomo%255CGZH%255Cneuro_GZH-001&itemTitle=GZH-001&sampleFileId=176963&pixelGrayscaleRangeMin=32680&pixelGrayscaleRangeMax=33016&pixelGrayscaleWindowMin=26323&pixelGrayscaleWindowMax=35294