Environment variables

Before you run eThread you need to set several environmental variables. This example assumes that you installed all required programs in /usr/local/, as described in previous sections. For custom installations, you need to point eThread to correct locations.

ethread

[home]$ export ET_THREADMOD=/usr/local/ethread-1.0/mod

[home]$ export ET_BINLIBSVM=/usr/local/libsvm-3.11/svm-predict

emodel

[home]$ export JACKALDIR=/usr/local/jackal_64bit/bin/jackal.dir

[home]$ export ET_MAXCLUSTER=/usr/local/maxcluster/maxcluster

[home]$ export ET_NEST=/usr/local/jackal_64bit/bin/nest

[home]$ export ET_MODELLER=/usr/local/modeller9.10/bin/mod9.10

[home]$ export ET_DFIRE=/usr/local/dfire-alone

[home]$ export ET_STRIDE=/usr/local/stride/stride

[home]$ export ET_TMSCORE=/usr/local/TMscore/TMscore

[home]$ export ET_PULCHRA=/usr/local/pulchra304/src/pulchra

[home]$ export ET_MODTOPHEAV=/usr/local/modeller9.10/modlib/top_heav.lib

[home]$ export ET_MODPAR=/usr/local/modeller9.10/modlib/par.lib

econtact

[home]$ export ET_CNTMOD=/usr/local/ethread-1.0/mod/econtact.yaml

[home]$ export ET_CNTLIB=/usr/local/libraries/ethread-lib-latest/templates/chain:/usr/local/libraries/ethread-lib-latest/templates/domain

erank-modeller

[home]$ export ET_BINSVMRANK=/home/michal/local/svm_rank/svm_rank_classify

[home]$ export ET_BINLIBSVM=/home/michal/local/libsvm-3.11/svm-predict

[home]$ export ET_MODSVM=/home/michal/local/ethread-1.0/mod/erank-modeller-svm

[home]$ export ET_MODSVR=/home/michal/local/ethread-1.0/mod/erank-modeller-svr

erank-tasser

[home]$ export JACKALBIN=/usr/local/jackal_64bit/bin

[home]$ export JACKALDIR=/usr/local/jackal_64bit/bin/jackal.dir

[home]$ export ET_TMSCORE=/usr/local/TMscore/TMscore

[home]$ export ET_PULCHRA=/usr/local/pulchra304/src/pulchra

[home]$ export ET_MODELLER=/usr/local/modeller9.10/bin/mod9.10

[home]$ export ET_DFIRE=/usr/local/dfire-alone

[home]$ export ET_STRIDE=/usr/local/stride/stride

[home]$ export ET_MODTOPHEAV=/usr/local/modeller9.10/modlib/top_heav.lib

[home]$ export ET_MODPAR=/usr/local/modeller9.10/modlib/par.lib

[home]$ export ET_BINSVMRANK=/usr/local/svm_rank/svm_rank_classify

[home]$ export ET_BINLIBSVM=/usr/local/libsvm-3.11/svm-predict

[home]$ export ET_TASSVM=/usr/local/ethread-1.0/mod/erank-tasser-svm

[home]$ export ET_TASSVR=/usr/local/ethread-1.0/mod/erank-tasser-svr

[home]$ export ET_THREADLIBS=/usr/local/libraries/ethread-lib-latest/templates/chain:/usr/local/libraries/ethread-lib-latest/templates/domain

Also, before you run TASSER-Lite, set the following variable:

[home]$ export ET_THREADLIBS=/usr/local/libraries/ethread-lib-latest/templates/chain:/usr/local/libraries/ethread-lib-latest/templates/domain

 

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