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ababaian / palmid

RNA dependent RNA Polymerase Palmprint Analysis
GNU Affero General Public License v3.0
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Added inputs to logs #14

Closed hannahhanle closed 2 years ago

hannahhanle commented 2 years ago

See below for an example of what the logs look like: 

$ sudo docker run  --mount type=bind,source="$(pwd)"/scripts/palmid.sh,target=/home/palmid/palmid.sh \
  --entrypoint "/bin/bash" serratusbio/palmid:latest \
  /home/palmid/palmid.sh -i data/waxsys.fa -d test -o waxsys

WARNING: The requested image's platform (linux/amd64) does not match the detected host platform (linux/arm64/v8) and no specific platform was requested
=================================================
================ palmID -- 0.0.4 ================
=================================================
ababaian (artem@rRNA.ca)
issues: https://github.com/ababaian/palmid/issues

Input:

>SRR9968562_waxsystermes_virus_microassembly
PIWDRVLEPLMRASPGIGRYMLTDVSPVGLLRVFKEKVDTTPHMPPEGMEDFKKASKEVE
KTLPTTLRELSWDEVKEMIRNDAAVGDPRWKTALEAKESEEFWREVQAEDLNHRNGVCLR
GVFHTMAKREKKEKNKWGQKTSRMIAYYDLIERACEMRTLGALNADHWAGEENTPEGVSG
IPQHLYGEKALNRLKMNRMTGETTEGQVFQGDIAGWDTRVSEYELQNEQRICEERAESED
HRRKIRTIYECYRSPIIRVQDADGNLMWLHGRGQRMSGTIVTYAMNTITNAIIQQAVSKD
LGNTYGRENRLISGDDCLVLYDTQHPEETLVAAFAKYGKVLKFEPGEPTWSKNIENTWFC
SHTYSRVKVGNDIRIMLDRSEIEILGKARIVLGGYKTGEVEQAMAKGYANYLLLTFPQRR
NVRLAANMVRAIVPRGLLPMGRAKDPWWREQPWMSTNNMIQAFNQIWEGWPPISSMKDIK
YVGRAREQMLDST

Hash:

f8967b47305496439341bc9819526154

-- running palmscan RdRP-detection

palmscan v1.0.i86linux64
(C) Copyright 2021 Robert C. Edgar

00:00 492Mb  100.0% Searching 1/1 hits (100.0%)
...