more --linearham changes

psathyrella / partis

B- and T-cell receptor sequence annotation, simulation, clonal family and germline inference, and affinity prediction

GNU General Public License v3.0

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more --linearham changes #257

Closed dunleavy005 closed 6 years ago

dunleavy005 commented 6 years ago

made sure unpadded sequences are sent to output file
auto-flagged command line args for linearham

Example command: bin/partis cache-parameters --infname testing_amrit/partis_input_seqs.fa --outfname testing_amrit/partis_output.csv --parameter-dir _output --linearham