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test.js
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test.js
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var assert = require('assert');
const tacoxdna = require('./dist/tacoxdna.js');
const fs = require('fs');
// Hide log output
tacoxdna.Logger.logFunction = (msg)=>{};
describe('Load cadnano', ()=>{
const input = [fs.readFileSync('./tests/cadnano/input.json', 'utf8')];
describe('Convert to oxDNA', ()=>{
const [topology, conf] = tacoxdna.convertFromTo(
input, 'cadnano', 'oxdna', {
grid: 'sq',
sequence: 'TATTCCCTCCCCCTACGATAAAGTGGTATTGTAGGGTCCAAGGATAAGTCTCGCACATAGCGAC',
});
const correctTop = fs.readFileSync('./tests/cadnano/correct_output.top', 'utf8');
it('should should have correct topology', ()=>{
assert.strictEqual(topology, correctTop);
});
const correctConf = fs.readFileSync('./tests/cadnano/correct_output.dat', 'utf8');
it('should should have correct configuration', ()=>{
assert.strictEqual(conf, correctConf);
});
});
describe('Convert to oxView', ()=>{
const output = tacoxdna.convertFromTo(
input, 'cadnano', 'oxview', {
grid: 'sq',
sequence: 'TATTCCCTCCCCCTACGATAAAGTGGTATTGTAGGGTCCAAGGATAAGTCTCGCACATAGCGAC',
});
const correctOut = fs.readFileSync('./tests/cadnano/correct_output.oxview', 'utf8');
it('should should have correct output', ()=>{
assert.strictEqual(output, correctOut);
});
});
});
describe('Load PDB', ()=>{
const input = [fs.readFileSync('./tests/pdb/input.pdb', 'utf8')];
describe('Convert to oxDNA', ()=>{
const [topology, conf] = tacoxdna.convertFromTo(
input, 'pdb', 'oxdna', {strand_dir: '53'}
);
const correctTop = fs.readFileSync('./tests/pdb/correct_output.top', 'utf8');
it('should should have correct topology', ()=>{
assert.strictEqual(topology, correctTop);
});
const correctConf = fs.readFileSync('./tests/pdb/correct_output.dat', 'utf8');
it('should should have correct configuration', ()=>{
assert.strictEqual(conf, correctConf);
});
});
describe('Convert to oxView', ()=>{
const output = tacoxdna.convertFromTo(
input, 'pdb', 'oxview', {strand_dir: '53'}
);
const correctOut = fs.readFileSync('./tests/pdb/correct_output.oxview', 'utf8');
it('should should have correct output', ()=>{
assert.strictEqual(output, correctOut);
});
});
});
describe('Load rpoly', ()=>{
const input = [fs.readFileSync('./tests/rpoly/input.rpoly', 'utf8')];
const seq = 'TACAATCCGTACGACGAAACAAGTTAAATAAGATAAACAATGTTGTTTCATCCCACGTAGTAGTTAAACACGTTTGGCAGCCGCCCTGCTAGCCCCCTTATTTCGACGTCGATGTCGCAACTGAATCTCCATGCCAGCTGTTACGGGTGAGGTTAGCCACAGTCAGATGGATATATCAGGAGAATCTGCCTGAGTCCCTCCGGTCTACAAGGTCTGAAAAAATATAGGGTCCAAGGATAAGTCTCGCACATAGCGACAGACGCATTTTCAGAACAACCGCATATTCCAATGTTATGGTGAAATAGCATCCCCCTCCCTTATACCAATATTTTAGCCG';
describe('Convert to oxDNA', ()=>{
const [topology, conf] = tacoxdna.convertFromTo(
input, 'rpoly', 'oxdna', {
sequence: seq
}
);
const correctTop = fs.readFileSync('./tests/rpoly/correct_output.top', 'utf8');
it('should should have correct topology', ()=>{
assert.strictEqual(topology, correctTop);
});
const correctConf = fs.readFileSync('./tests/rpoly/correct_output.dat', 'utf8');
it('should should have correct configuration', ()=>{
assert.strictEqual(conf, correctConf);
});
});
describe('Convert to oxView', ()=>{
const output = tacoxdna.convertFromTo(
input, 'rpoly', 'oxview', {
sequence: seq
}
);
const correctOut = fs.readFileSync('./tests/rpoly/correct_output.oxview', 'utf8');
it('should should have correct output', ()=>{
assert.strictEqual(output, correctOut);
});
});
});
describe('Load tiamat', ()=>{
const input = [fs.readFileSync('./tests/tiamat/input.dnajson', 'utf8')];
describe('Convert to oxDNA', ()=>{
const [topology, conf] = tacoxdna.convertFromTo(
input, 'tiamat', 'oxdna', {
tiamat_version: 2,
isDNA: true,
default_val: "R"
}
);
const correctTop = fs.readFileSync('./tests/tiamat/correct_output.top', 'utf8');
it('should should have correct topology', ()=>{
assert.strictEqual(topology, correctTop);
});
const correctConf = fs.readFileSync('./tests/tiamat/correct_output.dat', 'utf8');
it('should should have correct configuration', ()=>{
assert.strictEqual(conf, correctConf);
});
});
describe('Convert to oxView', ()=>{
const output = tacoxdna.convertFromTo(
input, 'tiamat', 'oxview', {
tiamat_version: 2,
isDNA: true,
default_val: "R"
}
);
const correctOut = fs.readFileSync('./tests/tiamat/correct_output.oxview', 'utf8');
it('should should have correct output', ()=>{
assert.strictEqual(output, correctOut);
});
});
});