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| Please don't hesitate to write if you have bugs. | | Please don't hesitate to write if you have bugs. |
| =Bugs= | | =Bugs= |
| ==New stuff==
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| * Check auto generation of tai file
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| * Do downsampling
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| * make calibration matrix
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| * fix queing of finished threads. MAYBE_FIXED
| | =Limitation= |
| * fix numSites==0 when using regions
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| * check probs with gatk likelihoods in combination with realSFS
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| * check files are closed properly
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| The above will not have an effect on the results. For large number of samples, the -nQueueSize can be used. If memory is a problem.
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| | |
| ==Limitation==
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| * RG tags are not implemented, we doubt we will ever support this. | | * RG tags are not implemented, we doubt we will ever support this. |
| * We have observed problems for rna data. This will be fixed at some point but is not a priority.
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| ==small changes that would be nice==
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| * check numSites==0 in all generals: derived classes.
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| * check if subdirs exists in outputfiles. Otherwise subtle crash. Done
| | =small changes that would be nice= |
| * write about single bam -i on wiki
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| * should rna be implemented
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| * make faster the filter output (ok yoda) FIXED >0.500
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| * make program wait for finished threads when changing chromosomes FIXED >0.500
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| * modify the chromo to the index instead of the chr* FIXED >0.500
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| * Problems opening indexfile: smallNA06985.mapped.ILLUMINA.bwa.CEU.low_coverage.20111114.bam.bai
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Revision as of 19:18, 5 March 2014
Contact
Please don't hesitate to write if you have bugs.
Bugs
Limitation
- RG tags are not implemented, we doubt we will ever support this.
small changes that would be nice