1 package compbio.ws.client;
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5 import compbio.engine.client.ConfExecutable;
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6 import compbio.engine.client.Executable;
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7 import compbio.runner.conservation.AACon;
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8 import compbio.runner.disorder.Disembl;
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9 import compbio.runner.disorder.GlobPlot;
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10 import compbio.runner.disorder.IUPred;
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11 import compbio.runner.disorder.Jronn;
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12 import compbio.runner.msa.ClustalO;
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13 import compbio.runner.msa.ClustalW;
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14 import compbio.runner.msa.Mafft;
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15 import compbio.runner.msa.Muscle;
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16 import compbio.runner.msa.Probcons;
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17 import compbio.runner.msa.Tcoffee;
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18 import compbio.runner.structure.RNAalifold;
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20 public class ServicesUtil {
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22 public static Services getServiceByRunner(Class<? extends Executable> class1) {
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23 assert class1 != null;
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24 String sname = class1.getSimpleName().toLowerCase();
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25 for (Services service : Services.values()) {
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26 if (service.toString().toLowerCase().contains(sname)) {
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33 public static Class<? extends Executable<?>> getServiceImpl(Services service) {
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38 return ClustalO.class;
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40 return ClustalW.class;
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44 return Muscle.class;
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46 return Tcoffee.class;
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48 return Probcons.class;
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50 return Disembl.class;
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52 return GlobPlot.class;
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56 return IUPred.class;
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58 return RNAalifold.class;
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60 throw new RuntimeException(
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61 "Unknown web service implementation class for service: "
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66 public static Class<? extends Executable<?>> getRunnerByJobDirectory(
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68 Services service = getServiceByRunnerName(getRunnerNameByJobDirectory(jobdir));
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69 return getServiceImpl(service);
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72 private static String getRunnerNameByJobDirectory(File jobdir) {
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73 String name = jobdir.getName().split("#")[0];
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75 if (name.startsWith(ConfExecutable.CLUSTER_TASK_ID_PREFIX)) {
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76 assert ConfExecutable.CLUSTER_TASK_ID_PREFIX.length() == 1;
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77 name = name.substring(1);
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82 public static Services getServiceByJobDirectory(File jobdir) {
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83 return getServiceByRunnerName(getRunnerNameByJobDirectory(jobdir));
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86 private static Services getServiceByRunnerName(String name) {
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87 for (Services service : Services.values()) {
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88 String runnerName = getServiceImpl(service).getSimpleName()
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90 name = name.trim().toLowerCase();
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91 if (name.startsWith(runnerName)) {
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