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Similar blocks of code found in 2 locations. Consider refactoring.
Open

package com.hongliangjie.fugue.utils;


import net.jafama.FastMath;
import net.jafama.StrictFastMath;
Severity: Major
Found in src/main/java/com/hongliangjie/fugue/utils/MathLog.java and 1 other location - About 2 hrs to fix
src/main/java/com/hongliangjie/fugue/utils/MathExp.java on lines 1..57

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 128.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Similar blocks of code found in 2 locations. Consider refactoring.
Open

package com.hongliangjie.fugue.utils;


import net.jafama.FastMath;
Severity: Major
Found in src/main/java/com/hongliangjie/fugue/utils/MathExp.java and 1 other location - About 2 hrs to fix
src/main/java/com/hongliangjie/fugue/utils/MathLog.java on lines 1..57

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 128.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Similar blocks of code found in 2 locations. Consider refactoring.
Open

    public void train(){
        int start = Integer.parseInt(cmdArg.getParam("start").toString());
        int end = Integer.parseInt(cmdArg.getParam("end").toString());
        if (start < 0)
            start = 0;
Severity: Major
Found in src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java and 1 other location - About 1 hr to fix
src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java on lines 753..761

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 81.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Similar blocks of code found in 2 locations. Consider refactoring.
Open

    public void test(){
        int start = Integer.parseInt(cmdArg.getParam("start").toString());
        int end = Integer.parseInt(cmdArg.getParam("end").toString());
        if (start < 0)
            start = 0;
Severity: Major
Found in src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java and 1 other location - About 1 hr to fix
src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java on lines 668..676

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 81.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 2 locations. Consider refactoring.
Open

                        for(int i = 0; i < beta.length; i++){
                            if(betaNew[i] < beta[i]){
                                betaLeft[i] = betaNew[i];
                            }
                            else{
Severity: Major
Found in src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java and 1 other location - About 1 hr to fix
src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java on lines 301..308

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 74.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 2 locations. Consider refactoring.
Open

                        for(int i = 0; i < alpha.length; i++){
                            if(alphaNew[i] < alpha[i]){
                                alphaLeft[i] = alphaNew[i];
                            }
                            else{
Severity: Major
Found in src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java and 1 other location - About 1 hr to fix
src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java on lines 309..316

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 74.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 2 locations. Consider refactoring.
Open

                    for(int i = 0; i < beta.length; i++){
                        betaNew[i] = randomGNR.nextDouble() * (betaRight[i] - betaLeft[i]) + betaLeft[i];
                        betaNewSum += betaNew[i];
                    }
Severity: Major
Found in src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java and 1 other location - About 1 hr to fix
src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java on lines 279..282

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 74.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 2 locations. Consider refactoring.
Open

                    for(int i = 0; i < alpha.length; i++){
                        alphaNew[i] = randomGNR.nextDouble() * (alphaRight[i] - alphaLeft[i]) + alphaLeft[i];
                        alphaNewSum += alphaNew[i];
                    }
Severity: Major
Found in src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java and 1 other location - About 1 hr to fix
src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java on lines 284..287

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 74.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 2 locations. Consider refactoring.
Open

                for (int i = 0; i < beta.length; i++){
                    betaLeft[i] = beta[i] - randomGNR.nextDouble() * _step;
                    betaRight[i] = betaLeft[i] + _step;
                }
Severity: Minor
Found in src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java and 1 other location - About 1 hr to fix
src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java on lines 264..267

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 68.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 2 locations. Consider refactoring.
Open

                for (int i = 0; i < alpha.length; i++){
                    alphaLeft[i] = alpha[i] - randomGNR.nextDouble() * _step;
                    alphaRight[i] = alphaLeft[i] + _step;
                }
Severity: Minor
Found in src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java and 1 other location - About 1 hr to fix
src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java on lines 269..272

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 68.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Similar blocks of code found in 2 locations. Consider refactoring.
Open

    protected class GibbsSampling extends Sampler{
        public GibbsSampling(){
            dist = new MultinomialDistribution(TOPIC_NUM, mathLog, mathExp, "normal");
            LOGGER.info("Gibbs Sampling: Normal");
        }
Severity: Minor
Found in src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java and 1 other location - About 55 mins to fix
src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java on lines 406..418

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 63.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Similar blocks of code found in 2 locations. Consider refactoring.
Open

    protected class GibbsLogSampling extends Sampler{
        public GibbsLogSampling(){
            dist = new MultinomialDistribution(TOPIC_NUM, mathLog, mathExp, "log");
            LOGGER.info("Gibbs Sampling: Log");
        }
Severity: Minor
Found in src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java and 1 other location - About 55 mins to fix
src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java on lines 392..404

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 63.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 3 locations. Consider refactoring.
Open

            for(i=0;i<8;i++) {
                xnum = xnum * x + p2[i];
                xden = xden * x + q2[i];
            }
Severity: Major
Found in src/main/java/com/hongliangjie/fugue/utils/LogGamma.java and 2 other locations - About 50 mins to fix
src/main/java/com/hongliangjie/fugue/utils/LogGamma.java on lines 105..108
src/main/java/com/hongliangjie/fugue/utils/LogGamma.java on lines 78..81

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 60.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 3 locations. Consider refactoring.
Open

            for(i=0;i<8;i++) {
                xnum = xnum * x + p1[i];
                xden = xden * x + q1[i];
            }
Severity: Major
Found in src/main/java/com/hongliangjie/fugue/utils/LogGamma.java and 2 other locations - About 50 mins to fix
src/main/java/com/hongliangjie/fugue/utils/LogGamma.java on lines 105..108
src/main/java/com/hongliangjie/fugue/utils/LogGamma.java on lines 95..98

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 60.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 3 locations. Consider refactoring.
Open

            for(i=0;i<8;i++) {
                xnum = xnum * x + p4[i];
                xden = xden * x + q4[i];
            }
Severity: Major
Found in src/main/java/com/hongliangjie/fugue/utils/LogGamma.java and 2 other locations - About 50 mins to fix
src/main/java/com/hongliangjie/fugue/utils/LogGamma.java on lines 95..98
src/main/java/com/hongliangjie/fugue/utils/LogGamma.java on lines 78..81

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 60.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 2 locations. Consider refactoring.
Open

        return likelihood(modelPools.get(modelID).wordTopicCounts, modelPools.get(modelID).docTopicBuffers, modelPools.get(modelID).alpha, modelPools.get(modelID).beta, modelPools.get(modelID).alphaSum, modelPools.get(modelID).betaSum);
Severity: Minor
Found in src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java and 1 other location - About 40 mins to fix
src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java on lines 499..499

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 51.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

Identical blocks of code found in 2 locations. Consider refactoring.
Open

                    double likelihood = likelihood(modelPools.get(modelID).wordTopicCounts, modelPools.get(modelID).docTopicBuffers, modelPools.get(modelID).alpha, modelPools.get(modelID).beta, modelPools.get(modelID).alphaSum, modelPools.get(modelID).betaSum);
Severity: Minor
Found in src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java and 1 other location - About 40 mins to fix
src/main/java/com/hongliangjie/fugue/topicmodeling/LDA/LDA.java on lines 332..332

Duplicated Code

Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

Tuning

This issue has a mass of 51.

We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

Refactorings

Further Reading

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Status
Source
Language