Tjelvar Olsson tjelvar-olsson
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Hyopcotyl3.czi: | |
| wget -O Hyopcotyl3.czi https://ndownloader.figshare.com/files/5398223 | |
| bftools: | |
| wget http://downloads.openmicroscopy.org/bio-formats/5.3.4/artifacts/bftools.zip | |
| unzip bftools | |
| what_happened_to_channels_0_and_2.ome.tif: | |
| ./bftools/bfconvert -range 10 10 Hyopcotyl3.czi what_happened_to_channels_1_and_2.ome.tif |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| https://dtool-demo.s3.amazonaws.com/ba92a5fa-d3b4-4f10-bcb9-947f62e652db |
tjelvar-olsson
/ gist:da8baaa05aa1d19194c546acd028d040
Last active
July 6, 2018 01:10
RSE workshop VM instructions
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| sudo apt-get install -y python virtualenv build-essential python-dev | |
| mkdir olsson && cd olsson | |
| virtualenv dtool | |
| source dtool/bin/activate | |
| pip install dtool dtool-s3 dtool-azure | |
| pip install awscli azure-cli | |
| mkdir datasets | |
| dtool copy https://dtool-demo.s3.amazonaws.com/af6727bf-29c7-43dd-b42f-a5d7ede28337 datasets | |
| dtool copy https://dtool-demo.s3.amazonaws.com/c58038a4-3a54-425e-9087-144d0733387f datasets | |
| dtool copy https://dtool-demo.s3.amazonaws.com/ba92a5fa-d3b4-4f10-bcb9-947f62e652db datasets |