test/jalview/bin/commandsTest2.argfile1

   1 --append=examples/test_fab41.result/sample.a2m
   2 --showannotations
   3 --showssannotations
   4 --colour=gecos-flower
   5 --structure=[structureviewer=jmol,tempfac=plddt,paematrix={dirname}/test_fab41_unrelaxed_rank_1_model_3_scores.json]{dirname}/test_fab41_unrelaxed_rank_1_model_3.pdb
   6 --structure={dirname}/test_fab41_unrelaxed_rank_2_model_4.pdb
   7 --structureviewer=jmol
   8 --paematrix={dirname}/test_fab41_unrelaxed_rank_2_model_4_scores.json
   9 --tempfac=plddt
  10 --structure={dirname}/test_fab41_unrelaxed_rank_3_model_2.pdb
  11 --structureviewer=jmol
  12 --paematrix={dirname}/test_fab41_unrelaxed_rank_3_model_2_scores.json
  13 --tempfac=plddt
  14 --structure=[structureviewer=none]{dirname}/test_fab41_unrelaxed_rank_4_model_5.pdb
  15 --paematrix={dirname}/test_fab41_unrelaxed_rank_4_model_5_scores.json
  16 --tempfac=plddt
  17 --structure={dirname}/test_fab41_unrelaxed_rank_5_model_1.pdb
  18 --structureviewer=none
  19 --tempfac=plddt
  20 --paematrix={dirname}/test_fab41_unrelaxed_rank_5_model_1_scores.json
  21 #--headless