| /dports/biology/bbmap/bbmap/current/kmer/ |
| H A D | AbstractKmerTableSet.java | 155 long precells=-1; in makePrefilter() local
165 if(precells<1){ in makePrefilter()
170 precells=prebits/cbits; in makePrefilter()
171 if(precells<100000){ //Not enough memory - no point. in makePrefilter()
180 …filter[0]=KmerCount7MTA.makeKca(null, null, null, kbig(), cbits, 0, precells, prehashes, minq, tru… in makePrefilter()
185 …filter[0]=KmerCount7MTA.makeKca_als(in1, in2, extra, kbig(), cbits, 0, precells, prehashes, minq, … in makePrefilter()
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| /dports/biology/bbmap/bbmap/current/jgi/ |
| H A D | ReadKmerDepthDistribution.java | 85 long precells=-1; in main() local
135 precells=Parse.parseKMG(b); in main()
136 prefilter=prefilter || precells!=0; in main()
288 if(precells<1){ in main()
291 precells=prebits/2; in main()
312 …outstream.println("prefilter cells: \t"+(precells>0 && prehashes>0 ? Tools.toKMG(precells) : "?")… in main()
313 outstream.println("prefilter hashes: \t"+(precells>0 && prehashes>0 ? ""+prehashes : "?")); in main()
351 …prefilterArray=KmerCount7MTA.makeKca(reads1, reads2, extra, k, 2, gap, precells, prehashes, minq, … in main()
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| H A D | KmerCoverage.java | 82 long precells=-1; in main() local
128 precells=Parse.parseKMG(b); in main()
129 prefilter=prefilter || precells!=0; in main()
278 if(precells<1){ in main()
281 precells=prebits/2; in main()
301 …outstream.println("prefilter cells: \t"+(precells>0 && prehashes>0 ? Tools.toKMG(precells) : "?")… in main()
302 outstream.println("prefilter hashes: \t"+(precells>0 && prehashes>0 ? ""+prehashes : "?")); in main()
335 …prefilterArray=KmerCount7MTA.makeKca(in1, in2, extra, k, 2, gap, precells, prehashes, minq, true, … in main()
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| H A D | KmerNormalize.java | 116 long precells=-1; in main() local
210 precells=Parse.parseKMG(b); in main()
211 prefilter=prefilter || precells!=0; in main()
595 …bases+=runPass(auto, memory, (cbits1<1 ? cbits : cbits1), cells, precbits, precells, buildpasses, … in main()
692 bases+=runPass(auto, memory, cbits, cells, precbits, precells, buildpasses, hashes, prehashes, k, in main()
704 bases+=runPass(auto, memory, cbits, cells, precbits, precells, buildpasses, hashes, prehashes, k, in main()
721 bases+=runPass(auto, memory, cbits, cells, precbits, precells, buildpasses, hashes, prehashes, k, in main()
907 if(precells<1){ in runPass()
910 precells=prebits/pcbits; in runPass()
932 …outstream.println("prefilter cells: \t"+(precells>0 && prehashes>0 ? Tools.toKMG(precells) : "?")… in runPass()
[all …]
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| /dports/biology/bbmap/bbmap/current/sketch/ |
| H A D | BlacklistMaker.java | 502 long precells=-1;
516 if(precells<1){
521 precells=prebits/cbits;
522 if(precells<100000){ //Not enough memory - no point.
533 …filter[0]=KmerCount7MTA.makeKca(in1, in2, extra, k, cbits, 0, precells, prehashes, minq, rcomp, fa…
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| /dports/biology/bbmap/bbmap/current/var2/ |
| H A D | CallVariants2.java | 688 long precells=prebits/cbits; in prefilter() local
689 if(precells<100000){ //Not enough memory - no point. in prefilter()
693 KCountArray7MTA kca=new KCountArray7MTA(precells, cbits, 0, 2, null, minReads); in prefilter()
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| H A D | CallVariants.java | 404 long precells=prebits/cbits; in prefilter() local
405 if(precells<100000){ //Not enough memory - no point. in prefilter()
409 KCountArray7MTA kca=new KCountArray7MTA(precells, cbits, 0, 2, null, minReads); in prefilter()
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| /dports/databases/speedtables/speedtables-1.13.12/stapi/display/ |
| H A D | display.tcl | 1639 set span [expr {4 + [llength $precells] + [llength $postcells]}]
1659 foreach cell $precells {
|