Mercurial > repos > artbio > small_rna_maps
changeset 19:f33afecac67a draft
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/small_rna_maps commit ee61e232fbde2e4f9b222607ba928bceaf271289
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/newtests/bed2.bed Thu Nov 22 20:05:32 2018 -0500 @@ -0,0 +1,116 @@ +FBtr0070001 0 1 cluster 1 . +FBtr0070001 6 18 cluster 14 . +FBtr0070001 26 34 cluster 42 . +FBtr0070001 71 72 cluster 0 . +FBtr0070533 0 1 cluster 1 . +FBtr0070533 11 38 cluster 23 . +FBtr0070533 71 72 cluster 0 . +FBtr0070603 0 42 cluster 68 . +FBtr0070603 50 56 cluster 2 . +FBtr0070603 71 72 cluster 0 . +FBtr0070604 0 1 cluster 1 . +FBtr0070604 17 22 cluster 2 . +FBtr0070604 29 32 cluster 36 . +FBtr0070604 56 57 cluster 1 . +FBtr0070604 71 72 cluster 0 . +FBtr0070911 0 1 cluster 0 . +FBtr0070911 14 15 cluster 1 . +FBtr0070911 37 38 cluster 1 . +FBtr0070911 72 73 cluster 0 . +FBtr0078490 0 1 cluster 0 . +FBtr0078490 12 18 cluster 4 . +FBtr0078490 24 28 cluster 3 . +FBtr0078490 37 38 cluster 1 . +FBtr0078490 71 72 cluster 0 . +FBtr0078580 0 31 cluster 1102 . +FBtr0078580 51 52 cluster 2 . +FBtr0078580 71 72 cluster 0 . +FBtr0078790 0 1 cluster 1 . +FBtr0078790 16 17 cluster 2 . +FBtr0078790 32 33 cluster 1 . +FBtr0078790 41 52 cluster 9 . +FBtr0078790 68 73 cluster 1 . +FBtr0079064 0 3 cluster 2 . +FBtr0079064 32 33 cluster 1 . +FBtr0079064 51 52 cluster 1 . +FBtr0079064 71 72 cluster 0 . +FBtr0079090 0 1 cluster 2 . +FBtr0079090 25 26 cluster 1 . +FBtr0079090 32 33 cluster 1 . +FBtr0079090 52 56 cluster 2 . +FBtr0079090 71 72 cluster 0 . +FBtr0079338 0 1 cluster 0 . +FBtr0079338 11 17 cluster 5 . +FBtr0079338 24 25 cluster 1 . +FBtr0079338 41 46 cluster 10 . +FBtr0079338 72 73 cluster 0 . +FBtr0079528 0 18 cluster 97 . +FBtr0079528 27 28 cluster 1 . +FBtr0079528 34 37 cluster 3 . +FBtr0079528 50 51 cluster 5 . +FBtr0079528 70 71 cluster 0 . +FBtr0079596 0 19 cluster 148 . +FBtr0079596 52 54 cluster 4 . +FBtr0079596 72 73 cluster 0 . +FBtr0079677 0 5 cluster 2 . +FBtr0079677 51 53 cluster 2 . +FBtr0079677 71 72 cluster 0 . +FBtr0079690 0 1 cluster 1 . +FBtr0079690 21 27 cluster 2 . +FBtr0079690 32 33 cluster 2 . +FBtr0079690 71 72 cluster 0 . +FBtr0079692 0 1 cluster 3 . +FBtr0079692 17 18 cluster 1 . +FBtr0079692 24 25 cluster 1 . +FBtr0079692 31 32 cluster 1 . +FBtr0079692 72 73 cluster 0 . +FBtr0079693 0 1 cluster 5 . +FBtr0079693 24 25 cluster 1 . +FBtr0079693 71 72 cluster 0 . +FBtr0079694 0 1 cluster 5 . +FBtr0079694 17 18 cluster 1 . +FBtr0079694 51 52 cluster 1 . +FBtr0079694 71 72 cluster 0 . +FBtr0079702 0 1 cluster 1 . +FBtr0079702 18 19 cluster 2 . +FBtr0079702 55 56 cluster 1 . +FBtr0079702 71 72 cluster 0 . +FBtr0079728 0 1 cluster 2 . +FBtr0079728 7 8 cluster 1 . +FBtr0079728 18 19 cluster 1 . +FBtr0079728 32 33 cluster 3 . +FBtr0079728 55 56 cluster 1 . +FBtr0079728 71 72 cluster 0 . +FBtr0079729 0 1 cluster 1 . +FBtr0079729 12 13 cluster 1 . +FBtr0079729 51 57 cluster 2 . +FBtr0079729 71 72 cluster 0 . +FBtr0079752 0 1 cluster 2 . +FBtr0079752 6 12 cluster 2 . +FBtr0079752 32 33 cluster 2 . +FBtr0079752 51 52 cluster 2 . +FBtr0079752 71 72 cluster 0 . +FBtr0079820 0 1 cluster 0 . +FBtr0079820 44 56 cluster 13 . +FBtr0079820 73 74 cluster 0 . +FBtr0080609 0 20 cluster 60 . +FBtr0080609 41 42 cluster 1 . +FBtr0080609 50 52 cluster 2 . +FBtr0080609 71 72 cluster 0 . +FBtr0080644 0 12 cluster 6 . +FBtr0080644 71 72 cluster 0 . +FBtr0080646 0 7 cluster 3 . +FBtr0080646 71 72 cluster 0 . +FBtr0080647 0 12 cluster 10 . +FBtr0080647 71 72 cluster 0 . +FBtr0080660 0 7 cluster 7 . +FBtr0080660 71 72 cluster 0 . +FBtr0080663 0 17 cluster 102 . +FBtr0080663 25 26 cluster 1 . +FBtr0080663 31 32 cluster 2 . +FBtr0080663 49 51 cluster 10 . +FBtr0080663 70 71 cluster 0 . +FBtr0080664 0 21 cluster 108 . +FBtr0080664 27 38 cluster 9 . +FBtr0080664 49 56 cluster 11 . +FBtr0080664 70 71 cluster 0 .
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/newtests/bed3.bed Thu Nov 22 20:05:32 2018 -0500 @@ -0,0 +1,35 @@ +FBtr0070001 6 18 cluster 14 + +FBtr0070001 26 34 cluster 42 + +FBtr0070533 11 38 cluster 23 + +FBtr0070603 0 42 cluster 68 + +FBtr0070603 50 56 cluster 2 + +FBtr0070604 17 22 cluster 2 + +FBtr0070604 29 32 cluster 36 + +FBtr0078490 12 18 cluster 4 + +FBtr0078490 24 28 cluster 3 + +FBtr0078580 0 31 cluster 1102 + +FBtr0078790 41 52 cluster 9 + +FBtr0079064 0 3 cluster 2 + +FBtr0079338 11 17 cluster 5 + +FBtr0079338 41 46 cluster 10 + +FBtr0079528 0 18 cluster 97 + +FBtr0079528 34 37 cluster 3 + +FBtr0079596 0 19 cluster 148 + +FBtr0079596 52 54 cluster 4 + +FBtr0079677 0 5 cluster 2 + +FBtr0079677 51 53 cluster 2 + +FBtr0079690 21 27 cluster 2 + +FBtr0079729 51 57 cluster 2 + +FBtr0079752 6 12 cluster 2 + +FBtr0079820 44 56 cluster 13 + +FBtr0080609 0 20 cluster 60 + +FBtr0080609 50 52 cluster 2 + +FBtr0080644 0 12 cluster 6 + +FBtr0080646 0 7 cluster 3 + +FBtr0080647 0 12 cluster 10 + +FBtr0080660 0 7 cluster 7 + +FBtr0080663 0 17 cluster 102 + +FBtr0080663 49 51 cluster 10 + +FBtr0080664 0 21 cluster 108 + +FBtr0080664 27 38 cluster 9 + +FBtr0080664 49 56 cluster 11 +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/newtests/clustering.tab Thu Nov 22 20:05:32 2018 -0500 @@ -0,0 +1,119 @@ +Dataset Chromosome Chrom_length Coordinate Polarity Counts Start-End Cluster Size density +input1.bam FBtr0070001 72 1 F 1 1-1 1 1.0 +input1.bam FBtr0070001 72 12 F 14 7-18 12 1.16666666667 +input1.bam FBtr0070001 72 30 F 42 27-34 8 5.25 +input1.bam FBtr0070001 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0070533 72 1 F 1 1-1 1 1.0 +input1.bam FBtr0070533 72 25 F 23 12-38 27 0.851851851852 +input1.bam FBtr0070533 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0070603 72 21 F 68 1-42 42 1.61904761905 +input1.bam FBtr0070603 72 53 F 2 51-56 6 0.333333333333 +input1.bam FBtr0070603 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0070604 72 1 F 1 1-1 1 1.0 +input1.bam FBtr0070604 72 20 F 2 18-22 5 0.4 +input1.bam FBtr0070604 72 31 F 36 30-32 3 12.0 +input1.bam FBtr0070604 72 57 F 1 57-57 1 1.0 +input1.bam FBtr0070604 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0070911 73 1 F 0 1-1 1 0.0 +input1.bam FBtr0070911 73 15 F 1 15-15 1 1.0 +input1.bam FBtr0070911 73 38 F 1 38-38 1 1.0 +input1.bam FBtr0070911 73 73 F 0 73-73 1 0.0 +input1.bam FBtr0078490 72 1 F 0 1-1 1 0.0 +input1.bam FBtr0078490 72 15 F 4 13-18 6 0.666666666667 +input1.bam FBtr0078490 72 26 F 3 25-28 4 0.75 +input1.bam FBtr0078490 72 38 F 1 38-38 1 1.0 +input1.bam FBtr0078490 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0078580 72 16 F 1102 1-31 31 35.5483870968 +input1.bam FBtr0078580 72 52 F 2 52-52 1 2.0 +input1.bam FBtr0078580 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0078790 73 1 F 1 1-1 1 1.0 +input1.bam FBtr0078790 73 17 F 2 17-17 1 2.0 +input1.bam FBtr0078790 73 33 F 1 33-33 1 1.0 +input1.bam FBtr0078790 73 47 F 9 42-52 11 0.818181818182 +input1.bam FBtr0078790 73 69 R 1 69-69 1 1.0 +input1.bam FBtr0078790 73 73 F 0 73-73 1 0.0 +input1.bam FBtr0079064 72 2 F 2 1-3 3 0.666666666667 +input1.bam FBtr0079064 72 33 F 1 33-33 1 1.0 +input1.bam FBtr0079064 72 52 F 1 52-52 1 1.0 +input1.bam FBtr0079064 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079090 72 1 F 2 1-1 1 2.0 +input1.bam FBtr0079090 72 26 F 1 26-26 1 1.0 +input1.bam FBtr0079090 72 33 F 1 33-33 1 1.0 +input1.bam FBtr0079090 72 53 F 1 53-53 1 1.0 +input1.bam FBtr0079090 72 56 R 1 56-56 1 1.0 +input1.bam FBtr0079090 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079338 73 1 F 0 1-1 1 0.0 +input1.bam FBtr0079338 73 14 F 5 12-17 6 0.833333333333 +input1.bam FBtr0079338 73 25 F 1 25-25 1 1.0 +input1.bam FBtr0079338 73 44 F 10 42-46 5 2.0 +input1.bam FBtr0079338 73 73 F 0 73-73 1 0.0 +input1.bam FBtr0079528 71 9 F 97 1-18 18 5.38888888889 +input1.bam FBtr0079528 71 28 F 1 28-28 1 1.0 +input1.bam FBtr0079528 71 36 F 3 35-37 3 1.0 +input1.bam FBtr0079528 71 51 F 5 51-51 1 5.0 +input1.bam FBtr0079528 71 71 F 0 71-71 1 0.0 +input1.bam FBtr0079596 73 10 F 148 1-19 19 7.78947368421 +input1.bam FBtr0079596 73 53 F 4 53-54 2 2.0 +input1.bam FBtr0079596 73 73 F 0 73-73 1 0.0 +input1.bam FBtr0079677 72 3 F 2 1-5 5 0.4 +input1.bam FBtr0079677 72 52 F 2 52-53 2 1.0 +input1.bam FBtr0079677 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079690 72 1 F 1 1-1 1 1.0 +input1.bam FBtr0079690 72 24 F 2 22-27 6 0.333333333333 +input1.bam FBtr0079690 72 33 F 2 33-33 1 2.0 +input1.bam FBtr0079690 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079692 73 1 F 3 1-1 1 3.0 +input1.bam FBtr0079692 73 18 F 1 18-18 1 1.0 +input1.bam FBtr0079692 73 25 F 1 25-25 1 1.0 +input1.bam FBtr0079692 73 32 F 1 32-32 1 1.0 +input1.bam FBtr0079692 73 73 F 0 73-73 1 0.0 +input1.bam FBtr0079693 72 1 F 5 1-1 1 5.0 +input1.bam FBtr0079693 72 25 F 1 25-25 1 1.0 +input1.bam FBtr0079693 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079694 72 1 F 5 1-1 1 5.0 +input1.bam FBtr0079694 72 18 F 1 18-18 1 1.0 +input1.bam FBtr0079694 72 52 F 1 52-52 1 1.0 +input1.bam FBtr0079694 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079702 72 1 F 1 1-1 1 1.0 +input1.bam FBtr0079702 72 19 F 2 19-19 1 2.0 +input1.bam FBtr0079702 72 56 F 1 56-56 1 1.0 +input1.bam FBtr0079702 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079728 72 1 F 2 1-1 1 2.0 +input1.bam FBtr0079728 72 8 F 1 8-8 1 1.0 +input1.bam FBtr0079728 72 19 F 1 19-19 1 1.0 +input1.bam FBtr0079728 72 33 F 3 33-33 1 3.0 +input1.bam FBtr0079728 72 56 F 1 56-56 1 1.0 +input1.bam FBtr0079728 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079729 72 1 F 1 1-1 1 1.0 +input1.bam FBtr0079729 72 13 F 1 13-13 1 1.0 +input1.bam FBtr0079729 72 54 F 2 52-57 6 0.333333333333 +input1.bam FBtr0079729 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079752 72 1 F 2 1-1 1 2.0 +input1.bam FBtr0079752 72 9 F 2 7-12 6 0.333333333333 +input1.bam FBtr0079752 72 33 F 2 33-33 1 2.0 +input1.bam FBtr0079752 72 52 F 2 52-52 1 2.0 +input1.bam FBtr0079752 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079820 74 1 F 0 1-1 1 0.0 +input1.bam FBtr0079820 74 50 F 13 45-56 12 1.08333333333 +input1.bam FBtr0079820 74 74 F 0 74-74 1 0.0 +input1.bam FBtr0080609 72 10 F 60 1-20 20 3.0 +input1.bam FBtr0080609 72 42 F 1 42-42 1 1.0 +input1.bam FBtr0080609 72 51 F 2 51-52 2 1.0 +input1.bam FBtr0080609 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0080644 72 6 F 6 1-12 12 0.5 +input1.bam FBtr0080644 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0080646 72 4 F 3 1-7 7 0.428571428571 +input1.bam FBtr0080646 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0080647 72 6 F 10 1-12 12 0.833333333333 +input1.bam FBtr0080647 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0080660 72 4 F 7 1-7 7 1.0 +input1.bam FBtr0080660 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0080663 71 9 F 102 1-17 17 6.0 +input1.bam FBtr0080663 71 26 F 1 26-26 1 1.0 +input1.bam FBtr0080663 71 32 F 2 32-32 1 2.0 +input1.bam FBtr0080663 71 50 F 10 50-51 2 5.0 +input1.bam FBtr0080663 71 71 F 0 71-71 1 0.0 +input1.bam FBtr0080664 71 11 F 108 1-21 21 5.14285714286 +input1.bam FBtr0080664 71 33 F 9 28-38 11 0.818181818182 +input1.bam FBtr0080664 71 53 F 11 50-56 7 1.57142857143 +input1.bam FBtr0080664 71 71 F 0 71-71 1 0.0
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/newtests/clustering_unstranded.tab Thu Nov 22 20:05:32 2018 -0500 @@ -0,0 +1,117 @@ +Dataset Chromosome Chrom_length Coordinate Polarity Counts Start-End Cluster Size density +input1.bam FBtr0070001 72 1 F 1 1-1 1 1.0 +input1.bam FBtr0070001 72 12 F 14 7-18 12 1.16666666667 +input1.bam FBtr0070001 72 30 F 42 27-34 8 5.25 +input1.bam FBtr0070001 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0070533 72 1 F 1 1-1 1 1.0 +input1.bam FBtr0070533 72 25 F 23 12-38 27 0.851851851852 +input1.bam FBtr0070533 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0070603 72 21 F 68 1-42 42 1.61904761905 +input1.bam FBtr0070603 72 53 F 2 51-56 6 0.333333333333 +input1.bam FBtr0070603 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0070604 72 1 F 1 1-1 1 1.0 +input1.bam FBtr0070604 72 20 F 2 18-22 5 0.4 +input1.bam FBtr0070604 72 31 F 36 30-32 3 12.0 +input1.bam FBtr0070604 72 57 F 1 57-57 1 1.0 +input1.bam FBtr0070604 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0070911 73 1 F 0 1-1 1 0.0 +input1.bam FBtr0070911 73 15 F 1 15-15 1 1.0 +input1.bam FBtr0070911 73 38 F 1 38-38 1 1.0 +input1.bam FBtr0070911 73 73 F 0 73-73 1 0.0 +input1.bam FBtr0078490 72 1 F 0 1-1 1 0.0 +input1.bam FBtr0078490 72 15 F 4 13-18 6 0.666666666667 +input1.bam FBtr0078490 72 26 F 3 25-28 4 0.75 +input1.bam FBtr0078490 72 38 F 1 38-38 1 1.0 +input1.bam FBtr0078490 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0078580 72 16 F 1102 1-31 31 35.5483870968 +input1.bam FBtr0078580 72 52 F 2 52-52 1 2.0 +input1.bam FBtr0078580 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0078790 73 1 F 1 1-1 1 1.0 +input1.bam FBtr0078790 73 17 F 2 17-17 1 2.0 +input1.bam FBtr0078790 73 33 F 1 33-33 1 1.0 +input1.bam FBtr0078790 73 47 F 9 42-52 11 0.818181818182 +input1.bam FBtr0078790 73 71 F 1 69-73 5 0.2 +input1.bam FBtr0079064 72 2 F 2 1-3 3 0.666666666667 +input1.bam FBtr0079064 72 33 F 1 33-33 1 1.0 +input1.bam FBtr0079064 72 52 F 1 52-52 1 1.0 +input1.bam FBtr0079064 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079090 72 1 F 2 1-1 1 2.0 +input1.bam FBtr0079090 72 26 F 1 26-26 1 1.0 +input1.bam FBtr0079090 72 33 F 1 33-33 1 1.0 +input1.bam FBtr0079090 72 54 F 2 53-56 4 0.5 +input1.bam FBtr0079090 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079338 73 1 F 0 1-1 1 0.0 +input1.bam FBtr0079338 73 14 F 5 12-17 6 0.833333333333 +input1.bam FBtr0079338 73 25 F 1 25-25 1 1.0 +input1.bam FBtr0079338 73 44 F 10 42-46 5 2.0 +input1.bam FBtr0079338 73 73 F 0 73-73 1 0.0 +input1.bam FBtr0079528 71 9 F 97 1-18 18 5.38888888889 +input1.bam FBtr0079528 71 28 F 1 28-28 1 1.0 +input1.bam FBtr0079528 71 36 F 3 35-37 3 1.0 +input1.bam FBtr0079528 71 51 F 5 51-51 1 5.0 +input1.bam FBtr0079528 71 71 F 0 71-71 1 0.0 +input1.bam FBtr0079596 73 10 F 148 1-19 19 7.78947368421 +input1.bam FBtr0079596 73 53 F 4 53-54 2 2.0 +input1.bam FBtr0079596 73 73 F 0 73-73 1 0.0 +input1.bam FBtr0079677 72 3 F 2 1-5 5 0.4 +input1.bam FBtr0079677 72 52 F 2 52-53 2 1.0 +input1.bam FBtr0079677 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079690 72 1 F 1 1-1 1 1.0 +input1.bam FBtr0079690 72 24 F 2 22-27 6 0.333333333333 +input1.bam FBtr0079690 72 33 F 2 33-33 1 2.0 +input1.bam FBtr0079690 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079692 73 1 F 3 1-1 1 3.0 +input1.bam FBtr0079692 73 18 F 1 18-18 1 1.0 +input1.bam FBtr0079692 73 25 F 1 25-25 1 1.0 +input1.bam FBtr0079692 73 32 F 1 32-32 1 1.0 +input1.bam FBtr0079692 73 73 F 0 73-73 1 0.0 +input1.bam FBtr0079693 72 1 F 5 1-1 1 5.0 +input1.bam FBtr0079693 72 25 F 1 25-25 1 1.0 +input1.bam FBtr0079693 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079694 72 1 F 5 1-1 1 5.0 +input1.bam FBtr0079694 72 18 F 1 18-18 1 1.0 +input1.bam FBtr0079694 72 52 F 1 52-52 1 1.0 +input1.bam FBtr0079694 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079702 72 1 F 1 1-1 1 1.0 +input1.bam FBtr0079702 72 19 F 2 19-19 1 2.0 +input1.bam FBtr0079702 72 56 F 1 56-56 1 1.0 +input1.bam FBtr0079702 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079728 72 1 F 2 1-1 1 2.0 +input1.bam FBtr0079728 72 8 F 1 8-8 1 1.0 +input1.bam FBtr0079728 72 19 F 1 19-19 1 1.0 +input1.bam FBtr0079728 72 33 F 3 33-33 1 3.0 +input1.bam FBtr0079728 72 56 F 1 56-56 1 1.0 +input1.bam FBtr0079728 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079729 72 1 F 1 1-1 1 1.0 +input1.bam FBtr0079729 72 13 F 1 13-13 1 1.0 +input1.bam FBtr0079729 72 54 F 2 52-57 6 0.333333333333 +input1.bam FBtr0079729 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079752 72 1 F 2 1-1 1 2.0 +input1.bam FBtr0079752 72 9 F 2 7-12 6 0.333333333333 +input1.bam FBtr0079752 72 33 F 2 33-33 1 2.0 +input1.bam FBtr0079752 72 52 F 2 52-52 1 2.0 +input1.bam FBtr0079752 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0079820 74 1 F 0 1-1 1 0.0 +input1.bam FBtr0079820 74 50 F 13 45-56 12 1.08333333333 +input1.bam FBtr0079820 74 74 F 0 74-74 1 0.0 +input1.bam FBtr0080609 72 10 F 60 1-20 20 3.0 +input1.bam FBtr0080609 72 42 F 1 42-42 1 1.0 +input1.bam FBtr0080609 72 51 F 2 51-52 2 1.0 +input1.bam FBtr0080609 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0080644 72 6 F 6 1-12 12 0.5 +input1.bam FBtr0080644 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0080646 72 4 F 3 1-7 7 0.428571428571 +input1.bam FBtr0080646 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0080647 72 6 F 10 1-12 12 0.833333333333 +input1.bam FBtr0080647 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0080660 72 4 F 7 1-7 7 1.0 +input1.bam FBtr0080660 72 72 F 0 72-72 1 0.0 +input1.bam FBtr0080663 71 9 F 102 1-17 17 6.0 +input1.bam FBtr0080663 71 26 F 1 26-26 1 1.0 +input1.bam FBtr0080663 71 32 F 2 32-32 1 2.0 +input1.bam FBtr0080663 71 50 F 10 50-51 2 5.0 +input1.bam FBtr0080663 71 71 F 0 71-71 1 0.0 +input1.bam FBtr0080664 71 11 F 108 1-21 21 5.14285714286 +input1.bam FBtr0080664 71 33 F 9 28-38 11 0.818181818182 +input1.bam FBtr0080664 71 53 F 11 50-56 7 1.57142857143 +input1.bam FBtr0080664 71 71 F 0 71-71 1 0.0
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/newtests/input1_counts_yminneg5_5.tab Thu Nov 22 20:05:32 2018 -0500 @@ -0,0 +1,300 @@ +Dataset Chromosome Chrom_length Coordinate Polarity Counts +input1.bam FBtr0070001 72 1 F 1 +input1.bam FBtr0070001 72 7 F 6 +input1.bam FBtr0070001 72 8 F 3 +input1.bam FBtr0070001 72 11 F 2 +input1.bam FBtr0070001 72 16 F 1 +input1.bam FBtr0070001 72 17 F 1 +input1.bam FBtr0070001 72 18 F 1 +input1.bam FBtr0070001 72 27 F 2 +input1.bam FBtr0070001 72 30 F 1 +input1.bam FBtr0070001 72 31 F 11 +input1.bam FBtr0070001 72 32 F 27 +input1.bam FBtr0070001 72 34 F 1 +input1.bam FBtr0070001 72 72 F 0 +input1.bam FBtr0070533 72 1 F 1 +input1.bam FBtr0070533 72 12 F 2 +input1.bam FBtr0070533 72 15 F 1 +input1.bam FBtr0070533 72 19 F 5 +input1.bam FBtr0070533 72 20 F 1 +input1.bam FBtr0070533 72 21 F 1 +input1.bam FBtr0070533 72 22 F 1 +input1.bam FBtr0070533 72 25 F 1 +input1.bam FBtr0070533 72 26 F 1 +input1.bam FBtr0070533 72 28 F 1 +input1.bam FBtr0070533 72 32 F 4 +input1.bam FBtr0070533 72 35 F 1 +input1.bam FBtr0070533 72 37 F 2 +input1.bam FBtr0070533 72 38 F 2 +input1.bam FBtr0070533 72 72 F 0 +input1.bam FBtr0070603 72 1 F 2 +input1.bam FBtr0070603 72 3 F 1 +input1.bam FBtr0070603 72 4 F 1 +input1.bam FBtr0070603 72 6 F 1 +input1.bam FBtr0070603 72 7 F 7 +input1.bam FBtr0070603 72 8 F 4 +input1.bam FBtr0070603 72 9 F 7 +input1.bam FBtr0070603 72 12 F 2 +input1.bam FBtr0070603 72 13 F 1 +input1.bam FBtr0070603 72 15 F 2 +input1.bam FBtr0070603 72 16 F 2 +input1.bam FBtr0070603 72 17 F 3 +input1.bam FBtr0070603 72 18 F 1 +input1.bam FBtr0070603 72 19 F 9 +input1.bam FBtr0070603 72 20 F 3 +input1.bam FBtr0070603 72 21 F 1 +input1.bam FBtr0070603 72 22 F 3 +input1.bam FBtr0070603 72 24 F 2 +input1.bam FBtr0070603 72 25 F 1 +input1.bam FBtr0070603 72 26 F 6 +input1.bam FBtr0070603 72 27 F 3 +input1.bam FBtr0070603 72 32 F 1 +input1.bam FBtr0070603 72 34 F 3 +input1.bam FBtr0070603 72 38 F 1 +input1.bam FBtr0070603 72 42 F 1 +input1.bam FBtr0070603 72 51 F 1 +input1.bam FBtr0070603 72 56 F 1 +input1.bam FBtr0070603 72 72 F 0 +input1.bam FBtr0070604 72 1 F 1 +input1.bam FBtr0070604 72 18 F 1 +input1.bam FBtr0070604 72 22 F 1 +input1.bam FBtr0070604 72 30 F 2 +input1.bam FBtr0070604 72 31 F 10 +input1.bam FBtr0070604 72 32 F 24 +input1.bam FBtr0070604 72 57 F 1 +input1.bam FBtr0070604 72 72 F 0 +input1.bam FBtr0070911 73 1 F 0 +input1.bam FBtr0070911 73 15 F 1 +input1.bam FBtr0070911 73 38 F 1 +input1.bam FBtr0070911 73 73 F 0 +input1.bam FBtr0078490 72 1 F 0 +input1.bam FBtr0078490 72 13 F 2 +input1.bam FBtr0078490 72 17 F 1 +input1.bam FBtr0078490 72 18 F 1 +input1.bam FBtr0078490 72 25 F 1 +input1.bam FBtr0078490 72 28 F 2 +input1.bam FBtr0078490 72 38 F 1 +input1.bam FBtr0078490 72 72 F 0 +input1.bam FBtr0078580 72 1 F 1041 +input1.bam FBtr0078580 72 3 F 3 +input1.bam FBtr0078580 72 4 F 4 +input1.bam FBtr0078580 72 5 F 5 +input1.bam FBtr0078580 72 6 F 4 +input1.bam FBtr0078580 72 7 F 1 +input1.bam FBtr0078580 72 8 F 2 +input1.bam FBtr0078580 72 11 F 1 +input1.bam FBtr0078580 72 12 F 13 +input1.bam FBtr0078580 72 14 F 7 +input1.bam FBtr0078580 72 15 F 1 +input1.bam FBtr0078580 72 16 F 4 +input1.bam FBtr0078580 72 17 F 1 +input1.bam FBtr0078580 72 19 F 1 +input1.bam FBtr0078580 72 20 F 2 +input1.bam FBtr0078580 72 21 F 5 +input1.bam FBtr0078580 72 24 F 3 +input1.bam FBtr0078580 72 25 F 2 +input1.bam FBtr0078580 72 29 F 1 +input1.bam FBtr0078580 72 31 F 1 +input1.bam FBtr0078580 72 52 F 2 +input1.bam FBtr0078580 72 72 F 0 +input1.bam FBtr0078790 73 1 F 1 +input1.bam FBtr0078790 73 17 F 2 +input1.bam FBtr0078790 73 33 F 1 +input1.bam FBtr0078790 73 42 F 4 +input1.bam FBtr0078790 73 44 F 2 +input1.bam FBtr0078790 73 46 F 1 +input1.bam FBtr0078790 73 47 F 1 +input1.bam FBtr0078790 73 52 F 1 +input1.bam FBtr0078790 73 69 R 1 +input1.bam FBtr0078790 73 73 F 0 +input1.bam FBtr0079064 72 1 F 1 +input1.bam FBtr0079064 72 3 F 1 +input1.bam FBtr0079064 72 33 F 1 +input1.bam FBtr0079064 72 52 F 1 +input1.bam FBtr0079064 72 72 F 0 +input1.bam FBtr0079090 72 1 F 2 +input1.bam FBtr0079090 72 26 F 1 +input1.bam FBtr0079090 72 33 F 1 +input1.bam FBtr0079090 72 53 F 1 +input1.bam FBtr0079090 72 56 R 1 +input1.bam FBtr0079090 72 72 F 0 +input1.bam FBtr0079338 73 1 F 0 +input1.bam FBtr0079338 73 12 F 1 +input1.bam FBtr0079338 73 13 F 2 +input1.bam FBtr0079338 73 14 F 1 +input1.bam FBtr0079338 73 17 F 1 +input1.bam FBtr0079338 73 25 F 1 +input1.bam FBtr0079338 73 42 F 8 +input1.bam FBtr0079338 73 43 F 1 +input1.bam FBtr0079338 73 46 F 1 +input1.bam FBtr0079338 73 73 F 0 +input1.bam FBtr0079528 71 1 F 19 +input1.bam FBtr0079528 71 3 F 55 +input1.bam FBtr0079528 71 4 F 2 +input1.bam FBtr0079528 71 8 F 4 +input1.bam FBtr0079528 71 10 F 1 +input1.bam FBtr0079528 71 11 F 2 +input1.bam FBtr0079528 71 13 F 1 +input1.bam FBtr0079528 71 14 F 4 +input1.bam FBtr0079528 71 16 F 1 +input1.bam FBtr0079528 71 17 F 4 +input1.bam FBtr0079528 71 18 F 4 +input1.bam FBtr0079528 71 28 F 1 +input1.bam FBtr0079528 71 35 F 1 +input1.bam FBtr0079528 71 36 F 1 +input1.bam FBtr0079528 71 37 F 1 +input1.bam FBtr0079528 71 51 F 5 +input1.bam FBtr0079528 71 71 F 0 +input1.bam FBtr0079596 73 1 F 13 +input1.bam FBtr0079596 73 3 F 13 +input1.bam FBtr0079596 73 4 F 31 +input1.bam FBtr0079596 73 5 F 2 +input1.bam FBtr0079596 73 6 F 11 +input1.bam FBtr0079596 73 8 F 9 +input1.bam FBtr0079596 73 9 F 12 +input1.bam FBtr0079596 73 10 F 3 +input1.bam FBtr0079596 73 11 F 19 +input1.bam FBtr0079596 73 12 F 1 +input1.bam FBtr0079596 73 13 F 20 +input1.bam FBtr0079596 73 14 F 6 +input1.bam FBtr0079596 73 15 F 1 +input1.bam FBtr0079596 73 16 F 3 +input1.bam FBtr0079596 73 17 F 2 +input1.bam FBtr0079596 73 18 F 1 +input1.bam FBtr0079596 73 19 F 1 +input1.bam FBtr0079596 73 53 F 2 +input1.bam FBtr0079596 73 54 F 2 +input1.bam FBtr0079596 73 73 F 0 +input1.bam FBtr0079677 72 1 F 1 +input1.bam FBtr0079677 72 5 F 1 +input1.bam FBtr0079677 72 52 F 1 +input1.bam FBtr0079677 72 53 F 1 +input1.bam FBtr0079677 72 72 F 0 +input1.bam FBtr0079690 72 1 F 1 +input1.bam FBtr0079690 72 22 F 1 +input1.bam FBtr0079690 72 27 F 1 +input1.bam FBtr0079690 72 33 F 2 +input1.bam FBtr0079690 72 72 F 0 +input1.bam FBtr0079692 73 1 F 3 +input1.bam FBtr0079692 73 18 F 1 +input1.bam FBtr0079692 73 25 F 1 +input1.bam FBtr0079692 73 32 F 1 +input1.bam FBtr0079692 73 73 F 0 +input1.bam FBtr0079693 72 1 F 5 +input1.bam FBtr0079693 72 25 F 1 +input1.bam FBtr0079693 72 72 F 0 +input1.bam FBtr0079694 72 1 F 5 +input1.bam FBtr0079694 72 18 F 1 +input1.bam FBtr0079694 72 52 F 1 +input1.bam FBtr0079694 72 72 F 0 +input1.bam FBtr0079702 72 1 F 1 +input1.bam FBtr0079702 72 19 F 2 +input1.bam FBtr0079702 72 56 F 1 +input1.bam FBtr0079702 72 72 F 0 +input1.bam FBtr0079728 72 1 F 2 +input1.bam FBtr0079728 72 8 F 1 +input1.bam FBtr0079728 72 19 F 1 +input1.bam FBtr0079728 72 33 F 3 +input1.bam FBtr0079728 72 56 F 1 +input1.bam FBtr0079728 72 72 F 0 +input1.bam FBtr0079729 72 1 F 1 +input1.bam FBtr0079729 72 13 F 1 +input1.bam FBtr0079729 72 52 F 1 +input1.bam FBtr0079729 72 57 F 1 +input1.bam FBtr0079729 72 72 F 0 +input1.bam FBtr0079752 72 1 F 2 +input1.bam FBtr0079752 72 7 F 1 +input1.bam FBtr0079752 72 12 F 1 +input1.bam FBtr0079752 72 33 F 2 +input1.bam FBtr0079752 72 52 F 2 +input1.bam FBtr0079752 72 72 F 0 +input1.bam FBtr0079820 74 1 F 0 +input1.bam FBtr0079820 74 45 F 1 +input1.bam FBtr0079820 74 46 F 2 +input1.bam FBtr0079820 74 48 F 1 +input1.bam FBtr0079820 74 49 F 1 +input1.bam FBtr0079820 74 51 F 1 +input1.bam FBtr0079820 74 54 F 4 +input1.bam FBtr0079820 74 55 F 1 +input1.bam FBtr0079820 74 56 F 2 +input1.bam FBtr0079820 74 74 F 0 +input1.bam FBtr0080609 72 1 F 13 +input1.bam FBtr0080609 72 3 F 2 +input1.bam FBtr0080609 72 4 F 10 +input1.bam FBtr0080609 72 5 F 2 +input1.bam FBtr0080609 72 7 F 19 +input1.bam FBtr0080609 72 8 F 4 +input1.bam FBtr0080609 72 9 F 3 +input1.bam FBtr0080609 72 12 F 1 +input1.bam FBtr0080609 72 15 F 1 +input1.bam FBtr0080609 72 16 F 1 +input1.bam FBtr0080609 72 17 F 2 +input1.bam FBtr0080609 72 19 F 1 +input1.bam FBtr0080609 72 20 F 1 +input1.bam FBtr0080609 72 42 F 1 +input1.bam FBtr0080609 72 51 F 1 +input1.bam FBtr0080609 72 52 F 1 +input1.bam FBtr0080609 72 72 F 0 +input1.bam FBtr0080644 72 1 F 1 +input1.bam FBtr0080644 72 4 F 2 +input1.bam FBtr0080644 72 7 F 1 +input1.bam FBtr0080644 72 12 F 2 +input1.bam FBtr0080644 72 72 F 0 +input1.bam FBtr0080646 72 1 F 1 +input1.bam FBtr0080646 72 6 F 1 +input1.bam FBtr0080646 72 7 F 1 +input1.bam FBtr0080646 72 72 F 0 +input1.bam FBtr0080647 72 1 F 3 +input1.bam FBtr0080647 72 3 F 1 +input1.bam FBtr0080647 72 6 F 2 +input1.bam FBtr0080647 72 8 F 1 +input1.bam FBtr0080647 72 11 F 2 +input1.bam FBtr0080647 72 12 F 1 +input1.bam FBtr0080647 72 72 F 0 +input1.bam FBtr0080660 72 1 F 0 +input1.bam FBtr0080660 72 4 F 4 +input1.bam FBtr0080660 72 7 F 3 +input1.bam FBtr0080660 72 72 F 0 +input1.bam FBtr0080663 71 1 F 22 +input1.bam FBtr0080663 71 3 F 56 +input1.bam FBtr0080663 71 4 F 4 +input1.bam FBtr0080663 71 7 F 1 +input1.bam FBtr0080663 71 8 F 4 +input1.bam FBtr0080663 71 12 F 2 +input1.bam FBtr0080663 71 14 F 2 +input1.bam FBtr0080663 71 15 F 1 +input1.bam FBtr0080663 71 16 F 3 +input1.bam FBtr0080663 71 17 F 7 +input1.bam FBtr0080663 71 26 F 1 +input1.bam FBtr0080663 71 32 F 2 +input1.bam FBtr0080663 71 50 F 1 +input1.bam FBtr0080663 71 51 F 9 +input1.bam FBtr0080663 71 71 F 0 +input1.bam FBtr0080664 71 1 F 16 +input1.bam FBtr0080664 71 3 F 56 +input1.bam FBtr0080664 71 4 F 4 +input1.bam FBtr0080664 71 6 F 1 +input1.bam FBtr0080664 71 7 F 1 +input1.bam FBtr0080664 71 8 F 4 +input1.bam FBtr0080664 71 9 F 1 +input1.bam FBtr0080664 71 11 F 3 +input1.bam FBtr0080664 71 12 F 3 +input1.bam FBtr0080664 71 13 F 2 +input1.bam FBtr0080664 71 14 F 3 +input1.bam FBtr0080664 71 16 F 2 +input1.bam FBtr0080664 71 17 F 10 +input1.bam FBtr0080664 71 18 F 1 +input1.bam FBtr0080664 71 21 F 1 +input1.bam FBtr0080664 71 28 F 2 +input1.bam FBtr0080664 71 32 F 1 +input1.bam FBtr0080664 71 33 F 1 +input1.bam FBtr0080664 71 34 F 1 +input1.bam FBtr0080664 71 35 F 1 +input1.bam FBtr0080664 71 36 F 1 +input1.bam FBtr0080664 71 37 F 1 +input1.bam FBtr0080664 71 38 F 1 +input1.bam FBtr0080664 71 50 F 2 +input1.bam FBtr0080664 71 51 F 7 +input1.bam FBtr0080664 71 52 F 1 +input1.bam FBtr0080664 71 56 F 1 +input1.bam FBtr0080664 71 71 F 0
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/newtests/input1_input2_counts.tab Thu Nov 22 20:05:32 2018 -0500 @@ -0,0 +1,617 @@ +Dataset Chromosome Chrom_length Coordinate Polarity Counts +input1.bam FBtr0070001 72 1 F 1 +input1.bam FBtr0070001 72 7 F 6 +input1.bam FBtr0070001 72 8 F 3 +input1.bam FBtr0070001 72 11 F 2 +input1.bam FBtr0070001 72 16 F 1 +input1.bam FBtr0070001 72 17 F 1 +input1.bam FBtr0070001 72 18 F 1 +input1.bam FBtr0070001 72 27 F 2 +input1.bam FBtr0070001 72 30 F 1 +input1.bam FBtr0070001 72 31 F 11 +input1.bam FBtr0070001 72 32 F 27 +input1.bam FBtr0070001 72 34 F 1 +input1.bam FBtr0070001 72 72 F 0 +input1.bam FBtr0070533 72 1 F 1 +input1.bam FBtr0070533 72 12 F 2 +input1.bam FBtr0070533 72 15 F 1 +input1.bam FBtr0070533 72 19 F 5 +input1.bam FBtr0070533 72 20 F 1 +input1.bam FBtr0070533 72 21 F 1 +input1.bam FBtr0070533 72 22 F 1 +input1.bam FBtr0070533 72 25 F 1 +input1.bam FBtr0070533 72 26 F 1 +input1.bam FBtr0070533 72 28 F 1 +input1.bam FBtr0070533 72 32 F 4 +input1.bam FBtr0070533 72 35 F 1 +input1.bam FBtr0070533 72 37 F 2 +input1.bam FBtr0070533 72 38 F 2 +input1.bam FBtr0070533 72 72 F 0 +input1.bam FBtr0070603 72 1 F 2 +input1.bam FBtr0070603 72 3 F 1 +input1.bam FBtr0070603 72 4 F 1 +input1.bam FBtr0070603 72 6 F 1 +input1.bam FBtr0070603 72 7 F 7 +input1.bam FBtr0070603 72 8 F 4 +input1.bam FBtr0070603 72 9 F 7 +input1.bam FBtr0070603 72 12 F 2 +input1.bam FBtr0070603 72 13 F 1 +input1.bam FBtr0070603 72 15 F 2 +input1.bam FBtr0070603 72 16 F 2 +input1.bam FBtr0070603 72 17 F 3 +input1.bam FBtr0070603 72 18 F 1 +input1.bam FBtr0070603 72 19 F 9 +input1.bam FBtr0070603 72 20 F 3 +input1.bam FBtr0070603 72 21 F 1 +input1.bam FBtr0070603 72 22 F 3 +input1.bam FBtr0070603 72 24 F 2 +input1.bam FBtr0070603 72 25 F 1 +input1.bam FBtr0070603 72 26 F 6 +input1.bam FBtr0070603 72 27 F 3 +input1.bam FBtr0070603 72 32 F 1 +input1.bam FBtr0070603 72 34 F 3 +input1.bam FBtr0070603 72 38 F 1 +input1.bam FBtr0070603 72 42 F 1 +input1.bam 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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/newtests/input1_input2_norm_1_2_counts.tab Thu Nov 22 20:05:32 2018 -0500 @@ -0,0 +1,617 @@ +Dataset Chromosome Chrom_length Coordinate Polarity Counts +input1.bam FBtr0070001 72 1 F 1 +input1.bam FBtr0070001 72 7 F 6 +input1.bam FBtr0070001 72 8 F 3 +input1.bam FBtr0070001 72 11 F 2 +input1.bam FBtr0070001 72 16 F 1 +input1.bam FBtr0070001 72 17 F 1 +input1.bam FBtr0070001 72 18 F 1 +input1.bam FBtr0070001 72 27 F 2 +input1.bam FBtr0070001 72 30 F 1 +input1.bam FBtr0070001 72 31 F 11 +input1.bam FBtr0070001 72 32 F 27 +input1.bam FBtr0070001 72 34 F 1 +input1.bam FBtr0070001 72 72 F 0 +input1.bam FBtr0070533 72 1 F 1 +input1.bam FBtr0070533 72 12 F 2 +input1.bam FBtr0070533 72 15 F 1 +input1.bam FBtr0070533 72 19 F 5 +input1.bam FBtr0070533 72 20 F 1 +input1.bam FBtr0070533 72 21 F 1 +input1.bam FBtr0070533 72 22 F 1 +input1.bam FBtr0070533 72 25 F 1 +input1.bam FBtr0070533 72 26 F 1 +input1.bam FBtr0070533 72 28 F 1 +input1.bam FBtr0070533 72 32 F 4 +input1.bam FBtr0070533 72 35 F 1 +input1.bam FBtr0070533 72 37 F 2 +input1.bam FBtr0070533 72 38 F 2 +input1.bam FBtr0070533 72 72 F 0 +input1.bam FBtr0070603 72 1 F 2 +input1.bam FBtr0070603 72 3 F 1 +input1.bam FBtr0070603 72 4 F 1 +input1.bam FBtr0070603 72 6 F 1 +input1.bam FBtr0070603 72 7 F 7 +input1.bam FBtr0070603 72 8 F 4 +input1.bam FBtr0070603 72 9 F 7 +input1.bam FBtr0070603 72 12 F 2 +input1.bam FBtr0070603 72 13 F 1 +input1.bam FBtr0070603 72 15 F 2 +input1.bam FBtr0070603 72 16 F 2 +input1.bam FBtr0070603 72 17 F 3 +input1.bam FBtr0070603 72 18 F 1 +input1.bam FBtr0070603 72 19 F 9 +input1.bam FBtr0070603 72 20 F 3 +input1.bam FBtr0070603 72 21 F 1 +input1.bam FBtr0070603 72 22 F 3 +input1.bam FBtr0070603 72 24 F 2 +input1.bam FBtr0070603 72 25 F 1 +input1.bam FBtr0070603 72 26 F 6 +input1.bam FBtr0070603 72 27 F 3 +input1.bam FBtr0070603 72 32 F 1 +input1.bam FBtr0070603 72 34 F 3 +input1.bam FBtr0070603 72 38 F 1 +input1.bam FBtr0070603 72 42 F 1 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FBtr0078580 72 8 F 2 +input1.bam FBtr0078580 72 11 F 1 +input1.bam FBtr0078580 72 12 F 13 +input1.bam FBtr0078580 72 14 F 7 +input1.bam FBtr0078580 72 15 F 1 +input1.bam FBtr0078580 72 16 F 4 +input1.bam FBtr0078580 72 17 F 1 +input1.bam FBtr0078580 72 19 F 1 +input1.bam FBtr0078580 72 20 F 2 +input1.bam FBtr0078580 72 21 F 5 +input1.bam FBtr0078580 72 24 F 3 +input1.bam FBtr0078580 72 25 F 2 +input1.bam FBtr0078580 72 29 F 1 +input1.bam FBtr0078580 72 31 F 1 +input1.bam FBtr0078580 72 52 F 2 +input1.bam FBtr0078580 72 72 F 0 +input1.bam FBtr0078790 73 1 F 1 +input1.bam FBtr0078790 73 17 F 2 +input1.bam FBtr0078790 73 33 F 1 +input1.bam FBtr0078790 73 42 F 4 +input1.bam FBtr0078790 73 44 F 2 +input1.bam FBtr0078790 73 46 F 1 +input1.bam FBtr0078790 73 47 F 1 +input1.bam FBtr0078790 73 52 F 1 +input1.bam FBtr0078790 73 69 R 1 +input1.bam FBtr0078790 73 73 F 0 +input1.bam FBtr0079064 72 1 F 1 +input1.bam FBtr0079064 72 3 F 1 +input1.bam FBtr0079064 72 33 F 1 +input1.bam FBtr0079064 72 52 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FBtr0079528 71 35 F 1 +input1.bam FBtr0079528 71 36 F 1 +input1.bam FBtr0079528 71 37 F 1 +input1.bam FBtr0079528 71 51 F 5 +input1.bam FBtr0079528 71 71 F 0 +input1.bam FBtr0079596 73 1 F 13 +input1.bam FBtr0079596 73 3 F 13 +input1.bam FBtr0079596 73 4 F 31 +input1.bam FBtr0079596 73 5 F 2 +input1.bam FBtr0079596 73 6 F 11 +input1.bam FBtr0079596 73 8 F 9 +input1.bam FBtr0079596 73 9 F 12 +input1.bam FBtr0079596 73 10 F 3 +input1.bam FBtr0079596 73 11 F 19 +input1.bam FBtr0079596 73 12 F 1 +input1.bam FBtr0079596 73 13 F 20 +input1.bam FBtr0079596 73 14 F 6 +input1.bam FBtr0079596 73 15 F 1 +input1.bam FBtr0079596 73 16 F 3 +input1.bam FBtr0079596 73 17 F 2 +input1.bam FBtr0079596 73 18 F 1 +input1.bam FBtr0079596 73 19 F 1 +input1.bam FBtr0079596 73 53 F 2 +input1.bam FBtr0079596 73 54 F 2 +input1.bam FBtr0079596 73 73 F 0 +input1.bam FBtr0079677 72 1 F 1 +input1.bam FBtr0079677 72 5 F 1 +input1.bam FBtr0079677 72 52 F 1 +input1.bam FBtr0079677 72 53 F 1 +input1.bam FBtr0079677 72 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FBtr0079729 72 52 F 1 +input1.bam FBtr0079729 72 57 F 1 +input1.bam FBtr0079729 72 72 F 0 +input1.bam FBtr0079752 72 1 F 2 +input1.bam FBtr0079752 72 7 F 1 +input1.bam FBtr0079752 72 12 F 1 +input1.bam FBtr0079752 72 33 F 2 +input1.bam FBtr0079752 72 52 F 2 +input1.bam FBtr0079752 72 72 F 0 +input1.bam FBtr0079820 74 1 F 0 +input1.bam FBtr0079820 74 45 F 1 +input1.bam FBtr0079820 74 46 F 2 +input1.bam FBtr0079820 74 48 F 1 +input1.bam FBtr0079820 74 49 F 1 +input1.bam FBtr0079820 74 51 F 1 +input1.bam FBtr0079820 74 54 F 4 +input1.bam FBtr0079820 74 55 F 1 +input1.bam FBtr0079820 74 56 F 2 +input1.bam FBtr0079820 74 74 F 0 +input1.bam FBtr0080609 72 1 F 13 +input1.bam FBtr0080609 72 3 F 2 +input1.bam FBtr0080609 72 4 F 10 +input1.bam FBtr0080609 72 5 F 2 +input1.bam FBtr0080609 72 7 F 19 +input1.bam FBtr0080609 72 8 F 4 +input1.bam FBtr0080609 72 9 F 3 +input1.bam FBtr0080609 72 12 F 1 +input1.bam FBtr0080609 72 15 F 1 +input1.bam FBtr0080609 72 16 F 1 +input1.bam FBtr0080609 72 17 F 2 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+input1.bam FBtr0080646 72 1 F 16.0 +input1.bam FBtr0080646 72 6 F 22.0 +input1.bam FBtr0080646 72 7 F 21.0 +input1.bam FBtr0080646 72 72 F 0 +input1.bam FBtr0080647 72 1 F 16.3 +input1.bam FBtr0080647 72 3 F 16.0 +input1.bam FBtr0080647 72 6 F 19.0 +input1.bam FBtr0080647 72 8 F 20.0 +input1.bam FBtr0080647 72 11 F 17.0 +input1.bam FBtr0080647 72 12 F 16.0 +input1.bam FBtr0080647 72 72 F 0 +input1.bam FBtr0080660 72 1 F 0 +input1.bam FBtr0080660 72 4 F 24.0 +input1.bam FBtr0080660 72 7 F 19.3 +input1.bam FBtr0080660 72 72 F 0 +input1.bam FBtr0080663 71 1 F 18.8 +input1.bam FBtr0080663 71 3 F 23.7 +input1.bam FBtr0080663 71 4 F 23.3 +input1.bam FBtr0080663 71 7 F 16.0 +input1.bam FBtr0080663 71 8 F 19.3 +input1.bam FBtr0080663 71 12 F 16.0 +input1.bam FBtr0080663 71 14 F 19.0 +input1.bam FBtr0080663 71 15 F 17.0 +input1.bam FBtr0080663 71 16 F 15.7 +input1.bam FBtr0080663 71 17 F 15.6 +input1.bam FBtr0080663 71 26 F 18.0 +input1.bam FBtr0080663 71 32 F 15.5 +input1.bam FBtr0080663 71 50 F 17.0 +input1.bam FBtr0080663 71 51 F 15.6 +input1.bam FBtr0080663 71 71 F 0 +input1.bam FBtr0080664 71 1 F 19.5 +input1.bam FBtr0080664 71 3 F 23.8 +input1.bam FBtr0080664 71 4 F 23.5 +input1.bam FBtr0080664 71 6 F 23.0 +input1.bam FBtr0080664 71 7 F 21.0 +input1.bam FBtr0080664 71 8 F 20.5 +input1.bam FBtr0080664 71 9 F 20.0 +input1.bam FBtr0080664 71 11 F 16.7 +input1.bam FBtr0080664 71 12 F 18.0 +input1.bam FBtr0080664 71 13 F 20.0 +input1.bam FBtr0080664 71 14 F 18.3 +input1.bam FBtr0080664 71 16 F 15.0 +input1.bam FBtr0080664 71 17 F 15.8 +input1.bam FBtr0080664 71 18 F 15.0 +input1.bam FBtr0080664 71 21 F 15.0 +input1.bam FBtr0080664 71 28 F 16.0 +input1.bam FBtr0080664 71 32 F 15.0 +input1.bam FBtr0080664 71 33 F 20.0 +input1.bam FBtr0080664 71 34 F 16.0 +input1.bam FBtr0080664 71 35 F 15.0 +input1.bam FBtr0080664 71 36 F 21.0 +input1.bam FBtr0080664 71 37 F 18.0 +input1.bam FBtr0080664 71 38 F 15.0 +input1.bam FBtr0080664 71 50 F 16.0 +input1.bam FBtr0080664 71 51 F 15.0 +input1.bam FBtr0080664 71 52 F 15.0 +input1.bam FBtr0080664 71 56 F 16.0 +input1.bam FBtr0080664 71 71 F 0
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/newtests/input1_median.tab Thu Nov 22 20:05:32 2018 -0500 @@ -0,0 +1,300 @@ +Dataset Chromosome Chrom_length Coordinate Polarity Median +input1.bam FBtr0070001 72 1 F 17.0 +input1.bam FBtr0070001 72 7 F 21.0 +input1.bam FBtr0070001 72 8 F 21.0 +input1.bam FBtr0070001 72 11 F 20.5 +input1.bam FBtr0070001 72 16 F 19.0 +input1.bam FBtr0070001 72 17 F 23.0 +input1.bam FBtr0070001 72 18 F 16.0 +input1.bam FBtr0070001 72 27 F 23.5 +input1.bam FBtr0070001 72 30 F 23.0 +input1.bam FBtr0070001 72 31 F 23.0 +input1.bam FBtr0070001 72 32 F 22.0 +input1.bam FBtr0070001 72 34 F 20.0 +input1.bam FBtr0070001 72 72 F 0 +input1.bam FBtr0070533 72 1 F 15.0 +input1.bam FBtr0070533 72 12 F 18.0 +input1.bam FBtr0070533 72 15 F 15.0 +input1.bam FBtr0070533 72 19 F 22.0 +input1.bam FBtr0070533 72 20 F 23.0 +input1.bam FBtr0070533 72 21 F 18.0 +input1.bam FBtr0070533 72 22 F 20.0 +input1.bam FBtr0070533 72 25 F 17.0 +input1.bam FBtr0070533 72 26 F 16.0 +input1.bam FBtr0070533 72 28 F 25.0 +input1.bam FBtr0070533 72 32 F 21.0 +input1.bam FBtr0070533 72 35 F 19.0 +input1.bam FBtr0070533 72 37 F 19.0 +input1.bam FBtr0070533 72 38 F 18.0 +input1.bam FBtr0070533 72 72 F 0 +input1.bam FBtr0070603 72 1 F 16.5 +input1.bam FBtr0070603 72 3 F 21.0 +input1.bam FBtr0070603 72 4 F 20.0 +input1.bam FBtr0070603 72 6 F 18.0 +input1.bam FBtr0070603 72 7 F 17.0 +input1.bam FBtr0070603 72 8 F 16.0 +input1.bam FBtr0070603 72 9 F 15.0 +input1.bam FBtr0070603 72 12 F 20.0 +input1.bam FBtr0070603 72 13 F 22.0 +input1.bam FBtr0070603 72 15 F 18.5 +input1.bam FBtr0070603 72 16 F 20.5 +input1.bam FBtr0070603 72 17 F 25.0 +input1.bam FBtr0070603 72 18 F 16.0 +input1.bam FBtr0070603 72 19 F 23.0 +input1.bam FBtr0070603 72 20 F 22.0 +input1.bam FBtr0070603 72 21 F 25.0 +input1.bam FBtr0070603 72 22 F 20.0 +input1.bam FBtr0070603 72 24 F 19.5 +input1.bam FBtr0070603 72 25 F 23.0 +input1.bam FBtr0070603 72 26 F 26.0 +input1.bam FBtr0070603 72 27 F 26.0 +input1.bam FBtr0070603 72 32 F 20.0 +input1.bam FBtr0070603 72 34 F 20.0 +input1.bam FBtr0070603 72 38 F 18.0 +input1.bam FBtr0070603 72 42 F 21.0 +input1.bam FBtr0070603 72 51 F 18.0 +input1.bam FBtr0070603 72 56 F 16.0 +input1.bam FBtr0070603 72 72 F 0 +input1.bam FBtr0070604 72 1 F 15.0 +input1.bam FBtr0070604 72 18 F 23.0 +input1.bam FBtr0070604 72 22 F 19.0 +input1.bam FBtr0070604 72 30 F 18.0 +input1.bam FBtr0070604 72 31 F 23.0 +input1.bam FBtr0070604 72 32 F 22.0 +input1.bam FBtr0070604 72 57 F 15.0 +input1.bam FBtr0070604 72 72 F 0 +input1.bam FBtr0070911 73 1 F 0 +input1.bam FBtr0070911 73 15 F 21.0 +input1.bam FBtr0070911 73 38 F 15.0 +input1.bam FBtr0070911 73 73 F 0 +input1.bam FBtr0078490 72 1 F 0 +input1.bam FBtr0078490 72 13 F 16.0 +input1.bam FBtr0078490 72 17 F 16.0 +input1.bam FBtr0078490 72 18 F 15.0 +input1.bam FBtr0078490 72 25 F 15.0 +input1.bam FBtr0078490 72 28 F 19.0 +input1.bam FBtr0078490 72 38 F 18.0 +input1.bam FBtr0078490 72 72 F 0 +input1.bam FBtr0078580 72 1 F 15.0 +input1.bam FBtr0078580 72 3 F 22.0 +input1.bam FBtr0078580 72 4 F 25.0 +input1.bam FBtr0078580 72 5 F 20.0 +input1.bam FBtr0078580 72 6 F 19.0 +input1.bam FBtr0078580 72 7 F 22.0 +input1.bam FBtr0078580 72 8 F 18.0 +input1.bam FBtr0078580 72 11 F 23.0 +input1.bam FBtr0078580 72 12 F 17.0 +input1.bam FBtr0078580 72 14 F 15.0 +input1.bam FBtr0078580 72 15 F 16.0 +input1.bam FBtr0078580 72 16 F 19.0 +input1.bam FBtr0078580 72 17 F 17.0 +input1.bam FBtr0078580 72 19 F 24.0 +input1.bam FBtr0078580 72 20 F 21.0 +input1.bam FBtr0078580 72 21 F 20.0 +input1.bam FBtr0078580 72 24 F 17.0 +input1.bam FBtr0078580 72 25 F 27.5 +input1.bam FBtr0078580 72 29 F 17.0 +input1.bam FBtr0078580 72 31 F 17.0 +input1.bam FBtr0078580 72 52 F 16.0 +input1.bam FBtr0078580 72 72 F 0 +input1.bam FBtr0078790 73 1 F 19.0 +input1.bam FBtr0078790 73 17 F 16.0 +input1.bam FBtr0078790 73 33 F 23.0 +input1.bam FBtr0078790 73 42 F 18.5 +input1.bam FBtr0078790 73 44 F 19.5 +input1.bam FBtr0078790 73 46 F 17.0 +input1.bam FBtr0078790 73 47 F 18.0 +input1.bam FBtr0078790 73 52 F 20.0 +input1.bam FBtr0078790 73 69 R 15.0 +input1.bam FBtr0078790 73 73 F 0 +input1.bam FBtr0079064 72 1 F 15.0 +input1.bam FBtr0079064 72 3 F 21.0 +input1.bam FBtr0079064 72 33 F 15.0 +input1.bam FBtr0079064 72 52 F 17.0 +input1.bam FBtr0079064 72 72 F 0 +input1.bam FBtr0079090 72 1 F 21.5 +input1.bam FBtr0079090 72 26 F 24.0 +input1.bam FBtr0079090 72 33 F 16.0 +input1.bam FBtr0079090 72 53 F 18.0 +input1.bam FBtr0079090 72 56 R 21.0 +input1.bam FBtr0079090 72 72 F 0 +input1.bam FBtr0079338 73 1 F 0 +input1.bam FBtr0079338 73 12 F 17.0 +input1.bam FBtr0079338 73 13 F 17.5 +input1.bam FBtr0079338 73 14 F 15.0 +input1.bam FBtr0079338 73 17 F 15.0 +input1.bam FBtr0079338 73 25 F 16.0 +input1.bam FBtr0079338 73 42 F 22.0 +input1.bam FBtr0079338 73 43 F 21.0 +input1.bam FBtr0079338 73 46 F 18.0 +input1.bam FBtr0079338 73 73 F 0 +input1.bam FBtr0079528 71 1 F 20.0 +input1.bam FBtr0079528 71 3 F 24.0 +input1.bam FBtr0079528 71 4 F 24.0 +input1.bam FBtr0079528 71 8 F 19.5 +input1.bam FBtr0079528 71 10 F 21.0 +input1.bam FBtr0079528 71 11 F 19.0 +input1.bam FBtr0079528 71 13 F 16.0 +input1.bam FBtr0079528 71 14 F 18.5 +input1.bam FBtr0079528 71 16 F 15.0 +input1.bam FBtr0079528 71 17 F 15.0 +input1.bam FBtr0079528 71 18 F 20.0 +input1.bam FBtr0079528 71 28 F 16.0 +input1.bam FBtr0079528 71 35 F 15.0 +input1.bam FBtr0079528 71 36 F 20.0 +input1.bam FBtr0079528 71 37 F 18.0 +input1.bam FBtr0079528 71 51 F 15.0 +input1.bam FBtr0079528 71 71 F 0 +input1.bam FBtr0079596 73 1 F 15.0 +input1.bam FBtr0079596 73 3 F 23.0 +input1.bam FBtr0079596 73 4 F 22.0 +input1.bam FBtr0079596 73 5 F 18.5 +input1.bam FBtr0079596 73 6 F 18.0 +input1.bam FBtr0079596 73 8 F 17.0 +input1.bam FBtr0079596 73 9 F 16.0 +input1.bam FBtr0079596 73 10 F 15.0 +input1.bam FBtr0079596 73 11 F 15.0 +input1.bam FBtr0079596 73 12 F 17.0 +input1.bam FBtr0079596 73 13 F 16.0 +input1.bam FBtr0079596 73 14 F 15.0 +input1.bam FBtr0079596 73 15 F 18.0 +input1.bam FBtr0079596 73 16 F 17.0 +input1.bam FBtr0079596 73 17 F 16.0 +input1.bam FBtr0079596 73 18 F 15.0 +input1.bam FBtr0079596 73 19 F 15.0 +input1.bam FBtr0079596 73 53 F 18.5 +input1.bam FBtr0079596 73 54 F 19.5 +input1.bam FBtr0079596 73 73 F 0 +input1.bam FBtr0079677 72 1 F 23.0 +input1.bam FBtr0079677 72 5 F 19.0 +input1.bam FBtr0079677 72 52 F 19.0 +input1.bam FBtr0079677 72 53 F 18.0 +input1.bam FBtr0079677 72 72 F 0 +input1.bam FBtr0079690 72 1 F 15.0 +input1.bam FBtr0079690 72 22 F 15.0 +input1.bam FBtr0079690 72 27 F 25.0 +input1.bam FBtr0079690 72 33 F 16.0 +input1.bam FBtr0079690 72 72 F 0 +input1.bam FBtr0079692 73 1 F 19.0 +input1.bam FBtr0079692 73 18 F 18.0 +input1.bam FBtr0079692 73 25 F 17.0 +input1.bam FBtr0079692 73 32 F 20.0 +input1.bam FBtr0079692 73 73 F 0 +input1.bam FBtr0079693 72 1 F 15.0 +input1.bam FBtr0079693 72 25 F 23.0 +input1.bam FBtr0079693 72 72 F 0 +input1.bam FBtr0079694 72 1 F 23.0 +input1.bam FBtr0079694 72 18 F 19.0 +input1.bam FBtr0079694 72 52 F 17.0 +input1.bam FBtr0079694 72 72 F 0 +input1.bam FBtr0079702 72 1 F 15.0 +input1.bam FBtr0079702 72 19 F 18.0 +input1.bam FBtr0079702 72 56 F 15.0 +input1.bam FBtr0079702 72 72 F 0 +input1.bam FBtr0079728 72 1 F 16.0 +input1.bam FBtr0079728 72 8 F 20.0 +input1.bam FBtr0079728 72 19 F 24.0 +input1.bam FBtr0079728 72 33 F 15.0 +input1.bam FBtr0079728 72 56 F 15.0 +input1.bam FBtr0079728 72 72 F 0 +input1.bam FBtr0079729 72 1 F 15.0 +input1.bam FBtr0079729 72 13 F 22.0 +input1.bam FBtr0079729 72 52 F 18.0 +input1.bam FBtr0079729 72 57 F 16.0 +input1.bam FBtr0079729 72 72 F 0 +input1.bam FBtr0079752 72 1 F 19.5 +input1.bam FBtr0079752 72 7 F 20.0 +input1.bam FBtr0079752 72 12 F 16.0 +input1.bam FBtr0079752 72 33 F 16.0 +input1.bam FBtr0079752 72 52 F 19.5 +input1.bam FBtr0079752 72 72 F 0 +input1.bam FBtr0079820 74 1 F 0 +input1.bam FBtr0079820 74 45 F 20.0 +input1.bam FBtr0079820 74 46 F 17.0 +input1.bam FBtr0079820 74 48 F 18.0 +input1.bam FBtr0079820 74 49 F 24.0 +input1.bam FBtr0079820 74 51 F 20.0 +input1.bam FBtr0079820 74 54 F 17.0 +input1.bam FBtr0079820 74 55 F 18.0 +input1.bam FBtr0079820 74 56 F 18.5 +input1.bam FBtr0079820 74 74 F 0 +input1.bam FBtr0080609 72 1 F 18.0 +input1.bam FBtr0080609 72 3 F 21.0 +input1.bam FBtr0080609 72 4 F 20.0 +input1.bam FBtr0080609 72 5 F 19.0 +input1.bam FBtr0080609 72 7 F 17.0 +input1.bam FBtr0080609 72 8 F 16.0 +input1.bam FBtr0080609 72 9 F 15.0 +input1.bam FBtr0080609 72 12 F 23.0 +input1.bam FBtr0080609 72 15 F 19.0 +input1.bam FBtr0080609 72 16 F 23.0 +input1.bam FBtr0080609 72 17 F 20.5 +input1.bam FBtr0080609 72 19 F 26.0 +input1.bam FBtr0080609 72 20 F 25.0 +input1.bam FBtr0080609 72 42 F 21.0 +input1.bam FBtr0080609 72 51 F 18.0 +input1.bam FBtr0080609 72 52 F 15.0 +input1.bam FBtr0080609 72 72 F 0 +input1.bam FBtr0080644 72 1 F 27.0 +input1.bam FBtr0080644 72 4 F 20.5 +input1.bam FBtr0080644 72 7 F 16.0 +input1.bam FBtr0080644 72 12 F 16.0 +input1.bam FBtr0080644 72 72 F 0 +input1.bam FBtr0080646 72 1 F 16.0 +input1.bam FBtr0080646 72 6 F 22.0 +input1.bam FBtr0080646 72 7 F 21.0 +input1.bam FBtr0080646 72 72 F 0 +input1.bam FBtr0080647 72 1 F 16.0 +input1.bam FBtr0080647 72 3 F 16.0 +input1.bam FBtr0080647 72 6 F 19.0 +input1.bam FBtr0080647 72 8 F 20.0 +input1.bam FBtr0080647 72 11 F 17.0 +input1.bam FBtr0080647 72 12 F 16.0 +input1.bam FBtr0080647 72 72 F 0 +input1.bam FBtr0080660 72 1 F 0 +input1.bam FBtr0080660 72 4 F 24.0 +input1.bam FBtr0080660 72 7 F 21.0 +input1.bam FBtr0080660 72 72 F 0 +input1.bam FBtr0080663 71 1 F 16.0 +input1.bam FBtr0080663 71 3 F 24.0 +input1.bam FBtr0080663 71 4 F 23.5 +input1.bam FBtr0080663 71 7 F 16.0 +input1.bam FBtr0080663 71 8 F 19.5 +input1.bam FBtr0080663 71 12 F 16.0 +input1.bam FBtr0080663 71 14 F 19.0 +input1.bam FBtr0080663 71 15 F 17.0 +input1.bam FBtr0080663 71 16 F 16.0 +input1.bam FBtr0080663 71 17 F 15.0 +input1.bam FBtr0080663 71 26 F 18.0 +input1.bam FBtr0080663 71 32 F 15.5 +input1.bam FBtr0080663 71 50 F 17.0 +input1.bam FBtr0080663 71 51 F 15.0 +input1.bam FBtr0080663 71 71 F 0 +input1.bam FBtr0080664 71 1 F 17.0 +input1.bam FBtr0080664 71 3 F 24.0 +input1.bam FBtr0080664 71 4 F 23.5 +input1.bam FBtr0080664 71 6 F 23.0 +input1.bam FBtr0080664 71 7 F 21.0 +input1.bam FBtr0080664 71 8 F 20.0 +input1.bam FBtr0080664 71 9 F 20.0 +input1.bam FBtr0080664 71 11 F 17.0 +input1.bam FBtr0080664 71 12 F 17.0 +input1.bam FBtr0080664 71 13 F 20.0 +input1.bam FBtr0080664 71 14 F 18.0 +input1.bam FBtr0080664 71 16 F 15.0 +input1.bam FBtr0080664 71 17 F 15.5 +input1.bam FBtr0080664 71 18 F 15.0 +input1.bam FBtr0080664 71 21 F 15.0 +input1.bam FBtr0080664 71 28 F 16.0 +input1.bam FBtr0080664 71 32 F 15.0 +input1.bam FBtr0080664 71 33 F 20.0 +input1.bam FBtr0080664 71 34 F 16.0 +input1.bam FBtr0080664 71 35 F 15.0 +input1.bam FBtr0080664 71 36 F 21.0 +input1.bam FBtr0080664 71 37 F 18.0 +input1.bam FBtr0080664 71 38 F 15.0 +input1.bam FBtr0080664 71 50 F 16.0 +input1.bam FBtr0080664 71 51 F 15.0 +input1.bam FBtr0080664 71 52 F 15.0 +input1.bam FBtr0080664 71 56 F 16.0 +input1.bam FBtr0080664 71 71 F 0
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/newtests/input1_min20_max30_size.tab Thu Nov 22 20:05:32 2018 -0500 @@ -0,0 +1,265 @@ +Dataset Chromosome Polarity Size Counts +input1.bam FBtr0070001 F 20 4 +input1.bam FBtr0070001 F 21 4 +input1.bam FBtr0070001 F 22 29 +input1.bam FBtr0070001 F 23 15 +input1.bam FBtr0070001 F 24 1 +input1.bam FBtr0070001 R 20 0 +input1.bam FBtr0070001 R 21 0 +input1.bam FBtr0070001 R 22 0 +input1.bam FBtr0070001 R 23 0 +input1.bam FBtr0070001 R 24 0 +input1.bam FBtr0070533 F 20 2 +input1.bam FBtr0070533 F 21 2 +input1.bam FBtr0070533 F 22 4 +input1.bam FBtr0070533 F 23 2 +input1.bam FBtr0070533 F 24 0 +input1.bam FBtr0070533 F 25 1 +input1.bam FBtr0070533 R 20 0 +input1.bam FBtr0070533 R 21 0 +input1.bam FBtr0070533 R 22 0 +input1.bam FBtr0070533 R 23 0 +input1.bam FBtr0070533 R 24 0 +input1.bam FBtr0070533 R 25 0 +input1.bam FBtr0070603 F 20 6 +input1.bam FBtr0070603 F 21 3 +input1.bam FBtr0070603 F 22 3 +input1.bam FBtr0070603 F 23 10 +input1.bam FBtr0070603 F 24 2 +input1.bam FBtr0070603 F 25 5 +input1.bam FBtr0070603 F 26 5 +input1.bam FBtr0070603 F 27 3 +input1.bam FBtr0070603 R 20 0 +input1.bam FBtr0070603 R 21 0 +input1.bam FBtr0070603 R 22 0 +input1.bam FBtr0070603 R 23 0 +input1.bam FBtr0070603 R 24 0 +input1.bam FBtr0070603 R 25 0 +input1.bam FBtr0070603 R 26 0 +input1.bam FBtr0070603 R 27 0 +input1.bam FBtr0070604 F 21 1 +input1.bam FBtr0070604 F 22 23 +input1.bam FBtr0070604 F 23 10 +input1.bam FBtr0070604 R 21 0 +input1.bam FBtr0070604 R 22 0 +input1.bam FBtr0070604 R 23 0 +input1.bam FBtr0070911 F 21 1 +input1.bam FBtr0070911 R 21 0 +input1.bam FBtr0078490 F 23 1 +input1.bam FBtr0078490 R 23 0 +input1.bam FBtr0078580 F 20 9 +input1.bam FBtr0078580 F 21 5 +input1.bam FBtr0078580 F 22 13 +input1.bam FBtr0078580 F 23 5 +input1.bam FBtr0078580 F 24 180 +input1.bam FBtr0078580 F 25 212 +input1.bam FBtr0078580 F 26 1 +input1.bam FBtr0078580 F 27 2 +input1.bam FBtr0078580 F 28 17 +input1.bam FBtr0078580 R 20 0 +input1.bam FBtr0078580 R 21 0 +input1.bam FBtr0078580 R 22 0 +input1.bam FBtr0078580 R 23 0 +input1.bam FBtr0078580 R 24 0 +input1.bam FBtr0078580 R 25 0 +input1.bam FBtr0078580 R 26 0 +input1.bam FBtr0078580 R 27 0 +input1.bam FBtr0078580 R 28 0 +input1.bam FBtr0078790 F 20 2 +input1.bam FBtr0078790 F 21 0 +input1.bam FBtr0078790 F 22 2 +input1.bam FBtr0078790 F 23 1 +input1.bam FBtr0078790 R 20 0 +input1.bam FBtr0078790 R 21 0 +input1.bam FBtr0078790 R 22 0 +input1.bam FBtr0078790 R 23 0 +input1.bam FBtr0079064 F 21 1 +input1.bam FBtr0079064 R 21 0 +input1.bam FBtr0079090 F 21 0 +input1.bam FBtr0079090 F 22 0 +input1.bam FBtr0079090 F 23 0 +input1.bam FBtr0079090 F 24 1 +input1.bam FBtr0079090 F 25 0 +input1.bam FBtr0079090 F 26 0 +input1.bam FBtr0079090 F 27 0 +input1.bam FBtr0079090 F 28 1 +input1.bam FBtr0079090 R 21 1 +input1.bam FBtr0079090 R 22 0 +input1.bam FBtr0079090 R 23 0 +input1.bam FBtr0079090 R 24 0 +input1.bam FBtr0079090 R 25 0 +input1.bam FBtr0079090 R 26 0 +input1.bam FBtr0079090 R 27 0 +input1.bam FBtr0079090 R 28 0 +input1.bam FBtr0079338 F 21 3 +input1.bam FBtr0079338 F 22 6 +input1.bam FBtr0079338 R 21 0 +input1.bam FBtr0079338 R 22 0 +input1.bam FBtr0079528 F 20 12 +input1.bam FBtr0079528 F 21 3 +input1.bam FBtr0079528 F 22 2 +input1.bam FBtr0079528 F 23 3 +input1.bam FBtr0079528 F 24 36 +input1.bam FBtr0079528 F 25 8 +input1.bam FBtr0079528 F 26 5 +input1.bam FBtr0079528 F 27 2 +input1.bam FBtr0079528 F 28 2 +input1.bam FBtr0079528 F 29 1 +input1.bam FBtr0079528 R 20 0 +input1.bam FBtr0079528 R 21 0 +input1.bam FBtr0079528 R 22 0 +input1.bam FBtr0079528 R 23 0 +input1.bam FBtr0079528 R 24 0 +input1.bam FBtr0079528 R 25 0 +input1.bam FBtr0079528 R 26 0 +input1.bam FBtr0079528 R 27 0 +input1.bam FBtr0079528 R 28 0 +input1.bam FBtr0079528 R 29 0 +input1.bam FBtr0079596 F 20 13 +input1.bam FBtr0079596 F 21 3 +input1.bam FBtr0079596 F 22 16 +input1.bam FBtr0079596 F 23 8 +input1.bam FBtr0079596 F 24 0 +input1.bam FBtr0079596 F 25 0 +input1.bam FBtr0079596 F 26 3 +input1.bam FBtr0079596 F 27 1 +input1.bam FBtr0079596 R 20 0 +input1.bam FBtr0079596 R 21 0 +input1.bam FBtr0079596 R 22 0 +input1.bam FBtr0079596 R 23 0 +input1.bam FBtr0079596 R 24 0 +input1.bam FBtr0079596 R 25 0 +input1.bam FBtr0079596 R 26 0 +input1.bam FBtr0079596 R 27 0 +input1.bam FBtr0079677 F 23 1 +input1.bam FBtr0079677 R 23 0 +input1.bam FBtr0079690 F 25 1 +input1.bam FBtr0079690 R 25 0 +input1.bam FBtr0079692 F 20 1 +input1.bam FBtr0079692 F 21 0 +input1.bam FBtr0079692 F 22 0 +input1.bam FBtr0079692 F 23 1 +input1.bam FBtr0079692 R 20 0 +input1.bam FBtr0079692 R 21 0 +input1.bam FBtr0079692 R 22 0 +input1.bam FBtr0079692 R 23 0 +input1.bam FBtr0079693 F 23 1 +input1.bam FBtr0079693 F 24 1 +input1.bam FBtr0079693 R 23 0 +input1.bam FBtr0079693 R 24 0 +input1.bam FBtr0079694 F 23 1 +input1.bam FBtr0079694 F 24 1 +input1.bam FBtr0079694 F 25 1 +input1.bam FBtr0079694 R 23 0 +input1.bam FBtr0079694 R 24 0 +input1.bam FBtr0079694 R 25 0 +input1.bam FBtr0079702 F 10 0 +input1.bam FBtr0079702 R 10 0 +input1.bam FBtr0079728 F 20 1 +input1.bam FBtr0079728 F 21 0 +input1.bam FBtr0079728 F 22 0 +input1.bam FBtr0079728 F 23 0 +input1.bam FBtr0079728 F 24 1 +input1.bam FBtr0079728 R 20 0 +input1.bam FBtr0079728 R 21 0 +input1.bam FBtr0079728 R 22 0 +input1.bam FBtr0079728 R 23 0 +input1.bam FBtr0079728 R 24 0 +input1.bam FBtr0079729 F 22 1 +input1.bam FBtr0079729 R 22 0 +input1.bam FBtr0079752 F 20 2 +input1.bam FBtr0079752 F 21 0 +input1.bam FBtr0079752 F 22 0 +input1.bam FBtr0079752 F 23 0 +input1.bam FBtr0079752 F 24 1 +input1.bam FBtr0079752 R 20 0 +input1.bam FBtr0079752 R 21 0 +input1.bam FBtr0079752 R 22 0 +input1.bam FBtr0079752 R 23 0 +input1.bam FBtr0079752 R 24 0 +input1.bam FBtr0079820 F 20 2 +input1.bam FBtr0079820 F 21 0 +input1.bam FBtr0079820 F 22 0 +input1.bam FBtr0079820 F 23 0 +input1.bam FBtr0079820 F 24 1 +input1.bam FBtr0079820 R 20 0 +input1.bam FBtr0079820 R 21 0 +input1.bam FBtr0079820 R 22 0 +input1.bam FBtr0079820 R 23 0 +input1.bam FBtr0079820 R 24 0 +input1.bam FBtr0080609 F 20 10 +input1.bam FBtr0080609 F 21 4 +input1.bam FBtr0080609 F 22 0 +input1.bam FBtr0080609 F 23 4 +input1.bam FBtr0080609 F 24 1 +input1.bam FBtr0080609 F 25 1 +input1.bam FBtr0080609 F 26 1 +input1.bam FBtr0080609 R 20 0 +input1.bam FBtr0080609 R 21 0 +input1.bam FBtr0080609 R 22 0 +input1.bam FBtr0080609 R 23 0 +input1.bam FBtr0080609 R 24 0 +input1.bam FBtr0080609 R 25 0 +input1.bam FBtr0080609 R 26 0 +input1.bam FBtr0080644 F 24 1 +input1.bam FBtr0080644 F 25 0 +input1.bam FBtr0080644 F 26 0 +input1.bam FBtr0080644 F 27 1 +input1.bam FBtr0080644 R 24 0 +input1.bam FBtr0080644 R 25 0 +input1.bam FBtr0080644 R 26 0 +input1.bam FBtr0080644 R 27 0 +input1.bam FBtr0080646 F 21 1 +input1.bam FBtr0080646 F 22 1 +input1.bam FBtr0080646 R 21 0 +input1.bam FBtr0080646 R 22 0 +input1.bam FBtr0080647 F 20 1 +input1.bam FBtr0080647 F 21 0 +input1.bam FBtr0080647 F 22 1 +input1.bam FBtr0080647 R 20 0 +input1.bam FBtr0080647 R 21 0 +input1.bam FBtr0080647 R 22 0 +input1.bam FBtr0080660 F 21 2 +input1.bam FBtr0080660 F 22 0 +input1.bam FBtr0080660 F 23 0 +input1.bam FBtr0080660 F 24 4 +input1.bam FBtr0080660 R 21 0 +input1.bam FBtr0080660 R 22 0 +input1.bam FBtr0080660 R 23 0 +input1.bam FBtr0080660 R 24 0 +input1.bam FBtr0080663 F 20 10 +input1.bam FBtr0080663 F 21 0 +input1.bam FBtr0080663 F 22 1 +input1.bam FBtr0080663 F 23 7 +input1.bam FBtr0080663 F 24 33 +input1.bam FBtr0080663 F 25 10 +input1.bam FBtr0080663 F 26 6 +input1.bam FBtr0080663 F 27 0 +input1.bam FBtr0080663 F 28 2 +input1.bam FBtr0080663 R 20 0 +input1.bam FBtr0080663 R 21 0 +input1.bam FBtr0080663 R 22 0 +input1.bam FBtr0080663 R 23 0 +input1.bam FBtr0080663 R 24 0 +input1.bam FBtr0080663 R 25 0 +input1.bam FBtr0080663 R 26 0 +input1.bam FBtr0080663 R 27 0 +input1.bam FBtr0080663 R 28 0 +input1.bam FBtr0080664 F 20 12 +input1.bam FBtr0080664 F 21 5 +input1.bam FBtr0080664 F 22 0 +input1.bam FBtr0080664 F 23 11 +input1.bam FBtr0080664 F 24 33 +input1.bam FBtr0080664 F 25 10 +input1.bam FBtr0080664 F 26 4 +input1.bam FBtr0080664 F 27 0 +input1.bam FBtr0080664 F 28 2 +input1.bam FBtr0080664 R 20 0 +input1.bam FBtr0080664 R 21 0 +input1.bam FBtr0080664 R 22 0 +input1.bam FBtr0080664 R 23 0 +input1.bam FBtr0080664 R 24 0 +input1.bam FBtr0080664 R 25 0 +input1.bam FBtr0080664 R 26 0 +input1.bam FBtr0080664 R 27 0 +input1.bam FBtr0080664 R 28 0
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/newtests/input_single_chr_x_6_single_plot_coverage.tab Thu Nov 22 20:05:32 2018 -0500 @@ -0,0 +1,481 @@ +Dataset Chromosome Chrom_length Coordinate Polarity Coverage +input_single_chr.bam_0 1 80 1 F 1 +input_single_chr.bam_0 1 80 2 F 1 +input_single_chr.bam_0 1 80 3 F 1 +input_single_chr.bam_0 1 80 4 F 1 +input_single_chr.bam_0 1 80 5 F 1 +input_single_chr.bam_0 1 80 6 F 1 +input_single_chr.bam_0 1 80 7 F 1 +input_single_chr.bam_0 1 80 8 F 1 +input_single_chr.bam_0 1 80 9 F 1 +input_single_chr.bam_0 1 80 10 F 1 +input_single_chr.bam_0 1 80 11 F 1 +input_single_chr.bam_0 1 80 12 F 1 +input_single_chr.bam_0 1 80 13 F 1 +input_single_chr.bam_0 1 80 14 F 1 +input_single_chr.bam_0 1 80 15 F 1 +input_single_chr.bam_0 1 80 16 F 1 +input_single_chr.bam_0 1 80 17 F 1 +input_single_chr.bam_0 1 80 18 F 1 +input_single_chr.bam_0 1 80 19 F 1 +input_single_chr.bam_0 1 80 20 F 1 +input_single_chr.bam_0 1 80 21 F 1 +input_single_chr.bam_0 1 80 22 F 1 +input_single_chr.bam_0 1 80 23 F 1 +input_single_chr.bam_0 1 80 24 F 1 +input_single_chr.bam_0 1 80 25 F 1 +input_single_chr.bam_0 1 80 26 F 1 +input_single_chr.bam_0 1 80 27 F 1 +input_single_chr.bam_0 1 80 28 F 1 +input_single_chr.bam_0 1 80 29 F 1 +input_single_chr.bam_0 1 80 30 F 1 +input_single_chr.bam_0 1 80 31 F 1 +input_single_chr.bam_0 1 80 32 F 1 +input_single_chr.bam_0 1 80 33 F 1 +input_single_chr.bam_0 1 80 34 F 1 +input_single_chr.bam_0 1 80 35 F 1 +input_single_chr.bam_0 1 80 36 F 1 +input_single_chr.bam_0 1 80 37 F 1 +input_single_chr.bam_0 1 80 38 F 1 +input_single_chr.bam_0 1 80 39 F 1 +input_single_chr.bam_0 1 80 40 F 1 +input_single_chr.bam_0 1 80 41 F 1 +input_single_chr.bam_0 1 80 42 F 1 +input_single_chr.bam_0 1 80 43 F 1 +input_single_chr.bam_0 1 80 44 F 1 +input_single_chr.bam_0 1 80 45 F 1 +input_single_chr.bam_0 1 80 46 F 1 +input_single_chr.bam_0 1 80 47 F 1 +input_single_chr.bam_0 1 80 48 F 1 +input_single_chr.bam_0 1 80 49 F 1 +input_single_chr.bam_0 1 80 50 F 1 +input_single_chr.bam_0 1 80 51 F 1 +input_single_chr.bam_0 1 80 52 F 1 +input_single_chr.bam_0 1 80 53 F 1 +input_single_chr.bam_0 1 80 54 F 1 +input_single_chr.bam_0 1 80 55 F 1 +input_single_chr.bam_0 1 80 56 F 1 +input_single_chr.bam_0 1 80 57 F 1 +input_single_chr.bam_0 1 80 58 F 1 +input_single_chr.bam_0 1 80 59 F 1 +input_single_chr.bam_0 1 80 60 F 1 +input_single_chr.bam_0 1 80 61 F 1 +input_single_chr.bam_0 1 80 62 F 1 +input_single_chr.bam_0 1 80 63 F 1 +input_single_chr.bam_0 1 80 64 F 1 +input_single_chr.bam_0 1 80 65 F 1 +input_single_chr.bam_0 1 80 66 F 1 +input_single_chr.bam_0 1 80 67 F 1 +input_single_chr.bam_0 1 80 68 F 1 +input_single_chr.bam_0 1 80 69 F 1 +input_single_chr.bam_0 1 80 70 F 1 +input_single_chr.bam_0 1 80 71 F 1 +input_single_chr.bam_0 1 80 72 F 1 +input_single_chr.bam_0 1 80 73 F 1 +input_single_chr.bam_0 1 80 74 F 1 +input_single_chr.bam_0 1 80 75 F 1 +input_single_chr.bam_0 1 80 76 F 1 +input_single_chr.bam_0 1 80 77 F 1 +input_single_chr.bam_0 1 80 78 F 1 +input_single_chr.bam_0 1 80 79 F 1 +input_single_chr.bam_0 1 80 80 F 1 +input_single_chr.bam_1 1 80 1 F 1 +input_single_chr.bam_1 1 80 2 F 1 +input_single_chr.bam_1 1 80 3 F 1 +input_single_chr.bam_1 1 80 4 F 1 +input_single_chr.bam_1 1 80 5 F 1 +input_single_chr.bam_1 1 80 6 F 1 +input_single_chr.bam_1 1 80 7 F 1 +input_single_chr.bam_1 1 80 8 F 1 +input_single_chr.bam_1 1 80 9 F 1 +input_single_chr.bam_1 1 80 10 F 1 +input_single_chr.bam_1 1 80 11 F 1 +input_single_chr.bam_1 1 80 12 F 1 +input_single_chr.bam_1 1 80 13 F 1 +input_single_chr.bam_1 1 80 14 F 1 +input_single_chr.bam_1 1 80 15 F 1 +input_single_chr.bam_1 1 80 16 F 1 +input_single_chr.bam_1 1 80 17 F 1 +input_single_chr.bam_1 1 80 18 F 1 +input_single_chr.bam_1 1 80 19 F 1 +input_single_chr.bam_1 1 80 20 F 1 +input_single_chr.bam_1 1 80 21 F 1 +input_single_chr.bam_1 1 80 22 F 1 +input_single_chr.bam_1 1 80 23 F 1 +input_single_chr.bam_1 1 80 24 F 1 +input_single_chr.bam_1 1 80 25 F 1 +input_single_chr.bam_1 1 80 26 F 1 +input_single_chr.bam_1 1 80 27 F 1 +input_single_chr.bam_1 1 80 28 F 1 +input_single_chr.bam_1 1 80 29 F 1 +input_single_chr.bam_1 1 80 30 F 1 +input_single_chr.bam_1 1 80 31 F 1 +input_single_chr.bam_1 1 80 32 F 1 +input_single_chr.bam_1 1 80 33 F 1 +input_single_chr.bam_1 1 80 34 F 1 +input_single_chr.bam_1 1 80 35 F 1 +input_single_chr.bam_1 1 80 36 F 1 +input_single_chr.bam_1 1 80 37 F 1 +input_single_chr.bam_1 1 80 38 F 1 +input_single_chr.bam_1 1 80 39 F 1 +input_single_chr.bam_1 1 80 40 F 1 +input_single_chr.bam_1 1 80 41 F 1 +input_single_chr.bam_1 1 80 42 F 1 +input_single_chr.bam_1 1 80 43 F 1 +input_single_chr.bam_1 1 80 44 F 1 +input_single_chr.bam_1 1 80 45 F 1 +input_single_chr.bam_1 1 80 46 F 1 +input_single_chr.bam_1 1 80 47 F 1 +input_single_chr.bam_1 1 80 48 F 1 +input_single_chr.bam_1 1 80 49 F 1 +input_single_chr.bam_1 1 80 50 F 1 +input_single_chr.bam_1 1 80 51 F 1 +input_single_chr.bam_1 1 80 52 F 1 +input_single_chr.bam_1 1 80 53 F 1 +input_single_chr.bam_1 1 80 54 F 1 +input_single_chr.bam_1 1 80 55 F 1 +input_single_chr.bam_1 1 80 56 F 1 +input_single_chr.bam_1 1 80 57 F 1 +input_single_chr.bam_1 1 80 58 F 1 +input_single_chr.bam_1 1 80 59 F 1 +input_single_chr.bam_1 1 80 60 F 1 +input_single_chr.bam_1 1 80 61 F 1 +input_single_chr.bam_1 1 80 62 F 1 +input_single_chr.bam_1 1 80 63 F 1 +input_single_chr.bam_1 1 80 64 F 1 +input_single_chr.bam_1 1 80 65 F 1 +input_single_chr.bam_1 1 80 66 F 1 +input_single_chr.bam_1 1 80 67 F 1 +input_single_chr.bam_1 1 80 68 F 1 +input_single_chr.bam_1 1 80 69 F 1 +input_single_chr.bam_1 1 80 70 F 1 +input_single_chr.bam_1 1 80 71 F 1 +input_single_chr.bam_1 1 80 72 F 1 +input_single_chr.bam_1 1 80 73 F 1 +input_single_chr.bam_1 1 80 74 F 1 +input_single_chr.bam_1 1 80 75 F 1 +input_single_chr.bam_1 1 80 76 F 1 +input_single_chr.bam_1 1 80 77 F 1 +input_single_chr.bam_1 1 80 78 F 1 +input_single_chr.bam_1 1 80 79 F 1 +input_single_chr.bam_1 1 80 80 F 1 +input_single_chr.bam_2 1 80 1 F 1 +input_single_chr.bam_2 1 80 2 F 1 +input_single_chr.bam_2 1 80 3 F 1 +input_single_chr.bam_2 1 80 4 F 1 +input_single_chr.bam_2 1 80 5 F 1 +input_single_chr.bam_2 1 80 6 F 1 +input_single_chr.bam_2 1 80 7 F 1 +input_single_chr.bam_2 1 80 8 F 1 +input_single_chr.bam_2 1 80 9 F 1 +input_single_chr.bam_2 1 80 10 F 1 +input_single_chr.bam_2 1 80 11 F 1 +input_single_chr.bam_2 1 80 12 F 1 +input_single_chr.bam_2 1 80 13 F 1 +input_single_chr.bam_2 1 80 14 F 1 +input_single_chr.bam_2 1 80 15 F 1 +input_single_chr.bam_2 1 80 16 F 1 +input_single_chr.bam_2 1 80 17 F 1 +input_single_chr.bam_2 1 80 18 F 1 +input_single_chr.bam_2 1 80 19 F 1 +input_single_chr.bam_2 1 80 20 F 1 +input_single_chr.bam_2 1 80 21 F 1 +input_single_chr.bam_2 1 80 22 F 1 +input_single_chr.bam_2 1 80 23 F 1 +input_single_chr.bam_2 1 80 24 F 1 +input_single_chr.bam_2 1 80 25 F 1 +input_single_chr.bam_2 1 80 26 F 1 +input_single_chr.bam_2 1 80 27 F 1 +input_single_chr.bam_2 1 80 28 F 1 +input_single_chr.bam_2 1 80 29 F 1 +input_single_chr.bam_2 1 80 30 F 1 +input_single_chr.bam_2 1 80 31 F 1 +input_single_chr.bam_2 1 80 32 F 1 +input_single_chr.bam_2 1 80 33 F 1 +input_single_chr.bam_2 1 80 34 F 1 +input_single_chr.bam_2 1 80 35 F 1 +input_single_chr.bam_2 1 80 36 F 1 +input_single_chr.bam_2 1 80 37 F 1 +input_single_chr.bam_2 1 80 38 F 1 +input_single_chr.bam_2 1 80 39 F 1 +input_single_chr.bam_2 1 80 40 F 1 +input_single_chr.bam_2 1 80 41 F 1 +input_single_chr.bam_2 1 80 42 F 1 +input_single_chr.bam_2 1 80 43 F 1 +input_single_chr.bam_2 1 80 44 F 1 +input_single_chr.bam_2 1 80 45 F 1 +input_single_chr.bam_2 1 80 46 F 1 +input_single_chr.bam_2 1 80 47 F 1 +input_single_chr.bam_2 1 80 48 F 1 +input_single_chr.bam_2 1 80 49 F 1 +input_single_chr.bam_2 1 80 50 F 1 +input_single_chr.bam_2 1 80 51 F 1 +input_single_chr.bam_2 1 80 52 F 1 +input_single_chr.bam_2 1 80 53 F 1 +input_single_chr.bam_2 1 80 54 F 1 +input_single_chr.bam_2 1 80 55 F 1 +input_single_chr.bam_2 1 80 56 F 1 +input_single_chr.bam_2 1 80 57 F 1 +input_single_chr.bam_2 1 80 58 F 1 +input_single_chr.bam_2 1 80 59 F 1 +input_single_chr.bam_2 1 80 60 F 1 +input_single_chr.bam_2 1 80 61 F 1 +input_single_chr.bam_2 1 80 62 F 1 +input_single_chr.bam_2 1 80 63 F 1 +input_single_chr.bam_2 1 80 64 F 1 +input_single_chr.bam_2 1 80 65 F 1 +input_single_chr.bam_2 1 80 66 F 1 +input_single_chr.bam_2 1 80 67 F 1 +input_single_chr.bam_2 1 80 68 F 1 +input_single_chr.bam_2 1 80 69 F 1 +input_single_chr.bam_2 1 80 70 F 1 +input_single_chr.bam_2 1 80 71 F 1 +input_single_chr.bam_2 1 80 72 F 1 +input_single_chr.bam_2 1 80 73 F 1 +input_single_chr.bam_2 1 80 74 F 1 +input_single_chr.bam_2 1 80 75 F 1 +input_single_chr.bam_2 1 80 76 F 1 +input_single_chr.bam_2 1 80 77 F 1 +input_single_chr.bam_2 1 80 78 F 1 +input_single_chr.bam_2 1 80 79 F 1 +input_single_chr.bam_2 1 80 80 F 1 +input_single_chr.bam_3 1 80 1 F 1 +input_single_chr.bam_3 1 80 2 F 1 +input_single_chr.bam_3 1 80 3 F 1 +input_single_chr.bam_3 1 80 4 F 1 +input_single_chr.bam_3 1 80 5 F 1 +input_single_chr.bam_3 1 80 6 F 1 +input_single_chr.bam_3 1 80 7 F 1 +input_single_chr.bam_3 1 80 8 F 1 +input_single_chr.bam_3 1 80 9 F 1 +input_single_chr.bam_3 1 80 10 F 1 +input_single_chr.bam_3 1 80 11 F 1 +input_single_chr.bam_3 1 80 12 F 1 +input_single_chr.bam_3 1 80 13 F 1 +input_single_chr.bam_3 1 80 14 F 1 +input_single_chr.bam_3 1 80 15 F 1 +input_single_chr.bam_3 1 80 16 F 1 +input_single_chr.bam_3 1 80 17 F 1 +input_single_chr.bam_3 1 80 18 F 1 +input_single_chr.bam_3 1 80 19 F 1 +input_single_chr.bam_3 1 80 20 F 1 +input_single_chr.bam_3 1 80 21 F 1 +input_single_chr.bam_3 1 80 22 F 1 +input_single_chr.bam_3 1 80 23 F 1 +input_single_chr.bam_3 1 80 24 F 1 +input_single_chr.bam_3 1 80 25 F 1 +input_single_chr.bam_3 1 80 26 F 1 +input_single_chr.bam_3 1 80 27 F 1 +input_single_chr.bam_3 1 80 28 F 1 +input_single_chr.bam_3 1 80 29 F 1 +input_single_chr.bam_3 1 80 30 F 1 +input_single_chr.bam_3 1 80 31 F 1 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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/newtests/size.tab Thu Nov 22 20:05:32 2018 -0500 @@ -0,0 +1,1045 @@ +Dataset Chromosome Polarity Size Counts +input1.bam FBtr0070001 F 16 2 +input1.bam FBtr0070001 F 17 1 +input1.bam FBtr0070001 F 18 0 +input1.bam FBtr0070001 F 19 1 +input1.bam FBtr0070001 F 20 4 +input1.bam FBtr0070001 F 21 4 +input1.bam FBtr0070001 F 22 29 +input1.bam FBtr0070001 F 23 15 +input1.bam FBtr0070001 F 24 1 +input1.bam FBtr0070001 R 16 0 +input1.bam FBtr0070001 R 17 0 +input1.bam FBtr0070001 R 18 0 +input1.bam FBtr0070001 R 19 0 +input1.bam FBtr0070001 R 20 0 +input1.bam FBtr0070001 R 21 0 +input1.bam FBtr0070001 R 22 0 +input1.bam FBtr0070001 R 23 0 +input1.bam FBtr0070001 R 24 0 +input1.bam FBtr0070533 F 15 2 +input1.bam FBtr0070533 F 16 1 +input1.bam FBtr0070533 F 17 1 +input1.bam FBtr0070533 F 18 6 +input1.bam FBtr0070533 F 19 3 +input1.bam FBtr0070533 F 20 2 +input1.bam FBtr0070533 F 21 2 +input1.bam FBtr0070533 F 22 4 +input1.bam FBtr0070533 F 23 2 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--- a/small_rna_maps.py Thu Nov 22 03:07:41 2018 -0500 +++ b/small_rna_maps.py Thu Nov 22 20:05:32 2018 -0500 @@ -302,8 +302,8 @@ str(start) + "-" + str(end), str(size), str(density)] line = [str(i) for i in line] if size > skip: - bedline = [key[0], str(start-1), str(end), 'cluster', '.', - polarity] + bedline = [key[0], str(start-1), str(end), 'cluster', + str(clustered_dic[key][0]), polarity] bed.write('\t'.join(bedline) + '\n') out.write('\t'.join(line) + '\n') bed.close()
--- a/small_rna_maps.xml Thu Nov 22 03:07:41 2018 -0500 +++ b/small_rna_maps.xml Thu Nov 22 20:05:32 2018 -0500 @@ -1,4 +1,4 @@ -<tool id="small_rna_maps" name="small_rna_maps" version="2.9.0"> +<tool id="small_rna_maps" name="small_rna_maps" version="2.9.1"> <description></description> <requirements> <requirement type="package" version="1.11.2=py27_0">numpy</requirement>
--- a/test-data/bed1.bed Thu Nov 22 03:07:41 2018 -0500 +++ b/test-data/bed1.bed Thu Nov 22 20:05:32 2018 -0500 @@ -1,118 +1,118 @@ -FBtr0070001 0 1 cluster . + -FBtr0070001 6 18 cluster . + -FBtr0070001 26 34 cluster . + -FBtr0070001 71 72 cluster . + -FBtr0070533 0 1 cluster . + -FBtr0070533 11 38 cluster . + -FBtr0070533 71 72 cluster . + -FBtr0070603 0 42 cluster . + -FBtr0070603 50 56 cluster . + -FBtr0070603 71 72 cluster . + -FBtr0070604 0 1 cluster . + -FBtr0070604 17 22 cluster . + -FBtr0070604 29 32 cluster . + -FBtr0070604 56 57 cluster . + -FBtr0070604 71 72 cluster . + -FBtr0070911 0 1 cluster . + -FBtr0070911 14 15 cluster . + -FBtr0070911 37 38 cluster . + -FBtr0070911 72 73 cluster . + -FBtr0078490 0 1 cluster . + -FBtr0078490 12 18 cluster . + -FBtr0078490 24 28 cluster . + -FBtr0078490 37 38 cluster . + -FBtr0078490 71 72 cluster . + -FBtr0078580 0 31 cluster . + -FBtr0078580 51 52 cluster . + -FBtr0078580 71 72 cluster . + -FBtr0078790 0 1 cluster . + -FBtr0078790 16 17 cluster . + -FBtr0078790 32 33 cluster . + -FBtr0078790 41 52 cluster . + -FBtr0078790 68 69 cluster . - 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--- a/test-data/bed2.bed Thu Nov 22 03:07:41 2018 -0500 +++ b/test-data/bed2.bed Thu Nov 22 20:05:32 2018 -0500 @@ -1,116 +1,116 @@ -FBtr0070001 0 1 cluster . . -FBtr0070001 6 18 cluster . . -FBtr0070001 26 34 cluster . . -FBtr0070001 71 72 cluster . . -FBtr0070533 0 1 cluster . . -FBtr0070533 11 38 cluster . . -FBtr0070533 71 72 cluster . . -FBtr0070603 0 42 cluster . . -FBtr0070603 50 56 cluster . . -FBtr0070603 71 72 cluster . . -FBtr0070604 0 1 cluster . . -FBtr0070604 17 22 cluster . . -FBtr0070604 29 32 cluster . . -FBtr0070604 56 57 cluster . . -FBtr0070604 71 72 cluster . . -FBtr0070911 0 1 cluster . . -FBtr0070911 14 15 cluster . . -FBtr0070911 37 38 cluster . . -FBtr0070911 72 73 cluster . . -FBtr0078490 0 1 cluster . . -FBtr0078490 12 18 cluster . . -FBtr0078490 24 28 cluster . . -FBtr0078490 37 38 cluster . . -FBtr0078490 71 72 cluster . . -FBtr0078580 0 31 cluster . . -FBtr0078580 51 52 cluster . . -FBtr0078580 71 72 cluster . . -FBtr0078790 0 1 cluster . . -FBtr0078790 16 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--- a/test-data/bed3.bed Thu Nov 22 03:07:41 2018 -0500 +++ b/test-data/bed3.bed Thu Nov 22 20:05:32 2018 -0500 @@ -1,35 +1,35 @@ -FBtr0070001 6 18 cluster . + -FBtr0070001 26 34 cluster . + -FBtr0070533 11 38 cluster . + -FBtr0070603 0 42 cluster . + -FBtr0070603 50 56 cluster . + -FBtr0070604 17 22 cluster . + -FBtr0070604 29 32 cluster . + -FBtr0078490 12 18 cluster . + -FBtr0078490 24 28 cluster . + -FBtr0078580 0 31 cluster . + -FBtr0078790 41 52 cluster . + -FBtr0079064 0 3 cluster . + -FBtr0079338 11 17 cluster . + -FBtr0079338 41 46 cluster . + -FBtr0079528 0 18 cluster . + -FBtr0079528 34 37 cluster . + -FBtr0079596 0 19 cluster . + -FBtr0079596 52 54 cluster . + -FBtr0079677 0 5 cluster . + -FBtr0079677 51 53 cluster . + -FBtr0079690 21 27 cluster . + -FBtr0079729 51 57 cluster . + -FBtr0079752 6 12 cluster . + -FBtr0079820 44 56 cluster . + -FBtr0080609 0 20 cluster . + -FBtr0080609 50 52 cluster . + -FBtr0080644 0 12 cluster . + -FBtr0080646 0 7 cluster . + -FBtr0080647 0 12 cluster . + -FBtr0080660 0 7 cluster . + -FBtr0080663 0 17 cluster . + -FBtr0080663 49 51 cluster . + -FBtr0080664 0 21 cluster . + -FBtr0080664 27 38 cluster . + -FBtr0080664 49 56 cluster . + +FBtr0070001 6 18 cluster 14 + +FBtr0070001 26 34 cluster 42 + +FBtr0070533 11 38 cluster 23 + +FBtr0070603 0 42 cluster 68 + +FBtr0070603 50 56 cluster 2 + +FBtr0070604 17 22 cluster 2 + +FBtr0070604 29 32 cluster 36 + +FBtr0078490 12 18 cluster 4 + +FBtr0078490 24 28 cluster 3 + +FBtr0078580 0 31 cluster 1102 + +FBtr0078790 41 52 cluster 9 + +FBtr0079064 0 3 cluster 2 + +FBtr0079338 11 17 cluster 5 + +FBtr0079338 41 46 cluster 10 + +FBtr0079528 0 18 cluster 97 + +FBtr0079528 34 37 cluster 3 + +FBtr0079596 0 19 cluster 148 + +FBtr0079596 52 54 cluster 4 + +FBtr0079677 0 5 cluster 2 + +FBtr0079677 51 53 cluster 2 + +FBtr0079690 21 27 cluster 2 + +FBtr0079729 51 57 cluster 2 + +FBtr0079752 6 12 cluster 2 + +FBtr0079820 44 56 cluster 13 + +FBtr0080609 0 20 cluster 60 + +FBtr0080609 50 52 cluster 2 + +FBtr0080644 0 12 cluster 6 + +FBtr0080646 0 7 cluster 3 + +FBtr0080647 0 12 cluster 10 + +FBtr0080660 0 7 cluster 7 + +FBtr0080663 0 17 cluster 102 + +FBtr0080663 49 51 cluster 10 + +FBtr0080664 0 21 cluster 108 + +FBtr0080664 27 38 cluster 9 + +FBtr0080664 49 56 cluster 11 +