Allows reading Bio-Rad *.1sc image/analysis files.
Project description
Python Package to read, parse, convert *.1sc files generated by Bio-Rad Quantity One software.
Also installs bio1sc2tiff command-line executable to convert *.1sc files to *.tif images.
An optional dependency: numpy. If present, biorad1sc_reader will run 4x to 5x faster.
Current Status
Version 0.1
- “Alpha” quality software
API subject to change
No known problems in operation.
Installs command-line executable: bio1sc2tiff (type ‘bio1sc2tiff –help’)
Reading Image Data OK
Saving Image from file to new TIFF file OK
- Reading Image Metadata from Data Block 7 OK
Scanner Name: <Scanner Name>
Number of Pixels: (<img_size_x> x <img_size_y>)
Image Area: (<img_size_x> mm x <img_size_y> mm)
Scan Memory Size: <total_img_size> Kb
Old file name: <old_file_name>
New file name: <new_file_name>
<File Directory>
New Image Acquired
Save As…
Quantity One <Quantity One Version String>
- python2 (lack of) support
So far code works with python2 if you remove the maxsplit argument from split
I’m currently unwilling to support python2
If you’d like python2 support, it’s DIY. :)
Documentation
Examples
# setup reader with input file
import bio1sc_reader
myreader = bio1sc_reader.Reader("my_biorad_file.1sc")
# get dict of metadata in Data Block 7 of 1sc file
my_img_metadata = myreader.get_img_metadata()
# Different options for writing image data out as a TIFF file
myreader.save_img_as_tif("unscaled_brightness.tif")
myreader.save_img_as_tif("unscaled_inverted_brightness.tif", invert=True)
myreader.save_img_as_tif_sc("scaled_brightness.tif")
myreader.save_img_as_tif_sc("scaled_brightness_more.tif", scale=0.8)
myreader.save_img_as_tif_sc("scaled_inverted_brightness.tif", invert=True)
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Source Distribution
Built Distributions
Hashes for biorad1sc_reader-0.1-py3-none-any.whl
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| BLAKE2b-256 | 30ebd17992510b427f646f53e321574c84c06951afdcc4ee44de57764da36089 |
Hashes for biorad1sc_reader-0.1-py2-none-any.whl
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| SHA256 | e3ee0354587bd3c0bbc0fbdb292aab971c6961867db46e6851baa02866da5a0b |
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| BLAKE2b-256 | 76e0554db2b93edc1694eec35ac9a7f0e1fccae6b6c4584c165a1b873db2925d |
