Python Package to read, parse, convert *.1sc files generated by Bio-Rad Quantity One software.
Documentation at: http://biorad1sc-reader.readthedocs.io/
An optional dependency: numpy. If present, image operations in biorad1sc_reader will run 4x to 5x faster.
Also installs the following command-line executables:
- bio1sc2tiff
converts *.1sc files to *.tif images. (type bio1sc2tiff --help)
- bio1scmeta
reports all metadata contained in each *.1sc file to a text file. (type bio1scmeta --help)
- bio1scread
reports details on a *.1sc file’s internal structure. (type bio1scread --help)
Current Status
“Alpha” quality software
API subject to change
No known problems in operation.
Reading Image Data OK
Saving Image from file to new TIFF file OK
Reader.save_img_as_tiff()
Reader.save_img_as_tiff_sc()
Reading all metadata OK
Reader.get_metadata()
Reader.get_metadata_compact()
Reading certain image Metadata from Data Block 7 OK
Reader.get_img_summary()
Includes:
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
I’m currently unwilling to support python2
If you’d like python2 support, it’s DIY. :)
Examples
# setup reader with input file
import bio1sc_reader
myreader = bio1sc_reader.Reader("my_biorad_file.1sc")
# get list/dict of all metadata in 1sc file
my_img_metadata = myreader.get_metadata()
# get a more succinct data structure of all metadata in 1sc file
my_img_metadata = myreader.get_metadata_compact()
# get a quick summary of some metadata about the image in the 1sc file
my_img_metadata = myreader.get_img_summary()
# 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)File Format Documentation
1 maintainer
Release files for biorad1sc-reader 0.7.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| biorad1sc_reader-0.7.0.tar.gz | 30.4 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| biorad1sc_reader-0.7.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 63.0 kB
Release files / biorad1sc_reader-0.7.0.tar.gz
| Download URL | biorad1sc_reader-0.7.0.tar.gz |
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| Size | 30.4 kB |
| Tags | Source |
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Release files / biorad1sc_reader-0.7.0-py3-none-any.whl
| Download URL | biorad1sc_reader-0.7.0-py3-none-any.whl |
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