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NCBI-Hackathons / Scan2CNV

MIT License
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run WINE and AutoConvert.exe to convert idat to gtc #14

Open ekarlins opened 7 years ago

ekarlins commented 7 years ago

Download wine: https://www.winehq.org/announce/2.0 Download AutoConvert: https://support.illumina.com/array/array_software/beeline/downloads.html Run like this:

AutoConvert.exe /path/to/IDAT/dir /path/to/output/directory /path/tomanifest.bpm /path/to/cluster_file.egt

ekarlins commented 7 years ago

wine installed on ubuntu server. I followed these instructions to install: https://wiki.winehq.org/Ubuntu

ekarlins commented 7 years ago

Attempted the following command, but got errors. Trying to reinstall dev version of wine.

cd /home/ubuntu/ekarlins

wine /home/ubuntu/AutoConvert_2.0/AutoConvert.exe gitRepo/Global_Screening_Arrays/files/ testGtcOut/ /home/ubuntu/data/GSAMD-Files/build37/GSAMD-24v1-0_20011747_A1.bpm /home/ubuntu/data/GSAMD-Files/GSA-24v1-0_A1_ClusterFile.egt