ReportTable fails when only AdapterRemoval has been run

[jfy133]

If an EAGER run has been set up that has only the initial pre-processing and AdapterRemoval modules turned on (nothing downstream other than 'ReportGenerator' and 'Cleanup') ReportTable fails with the following error:

Analyzing Sample: TARA_Y100000588
Exception in thread "main" java.lang.NumberFormatException: For input string: "NA"
    at sun.misc.FloatingDecimal.readJavaFormatString(FloatingDecimal.java:2043)
    at sun.misc.FloatingDecimal.parseDouble(FloatingDecimal.java:110)
    at java.lang.Double.parseDouble(Double.java:538)
    at analyse.AnalyzeSample.analyseFiles(AnalyzeSample.java:427)
    at analyse.AnalyzeSample.<init>(AnalyzeSample.java:133)
    at main.ReportTable.main(ReportTable.java:83)

In the EAGER setup described above, only the following entries are found in the EAGER output directory:

• 0-FastQC
• 1-AdapClip
• 5-DeDup
• 6-QualiMap
• 2017-07-09-12-15-EAGER.xml
• DONE.CleanUpRedundantData
• EAGER.log

[apeltzer]

@zxmmx04 What do you need to get that fixed?

[alex-seitz]

The current commit (version 1.92.29) should fix that problem

[jfy133]

This has not fixed the problem. I recieve pretty much the same error except this line: at analyse.AnalyzeSample.analyseFiles(AnalyzeSample.java:439)

[alex-seitz]

I see the problem. It might take some time to fix it. I will write and commit then.

[alex-seitz]

Now the lates commit (1.92.30) should work. At least it does here.

[jfy133]

Works for me as well now. Thanks!