Mercurial > repos > artbio > small_rna_maps
changeset 29:8b5695592784 draft
"planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/small_rna_maps commit c3d728b98db4987821feae40952d9797c97eaf5a"
| author | artbio |
|---|---|
| date | Fri, 04 Oct 2019 04:33:53 -0400 |
| parents | 14adf24603b6 |
| children | 183bf49fe77c |
| files | delphine delphine.pub small_rna_maps.py small_rna_maps.xml test-data/clustering.pdf test-data/clustering_unstranded.pdf test-data/global_merge.pdf test-data/global_nomerge.pdf test-data/input1__single_plot_mean.pdf test-data/input1_input2_double_plot_counts_size_ylimneg5_5.pdf test-data/input1_input2_norm_1_2_single_plot_counts.pdf test-data/input1_input2_size.tab test-data/input1_input2new_norm_1_2_single_plot_counts.pdf test-data/input1_min20_max30_single_plot_size.pdf test-data/input1_min20_max30_size.tab test-data/input1_single_plot_median.pdf test-data/input1_yminneg5_5_single_plot_counts.pdf test-data/input_single_chr_x_6_single_plot_coverage.pdf test-data/size.tab |
| diffstat | 19 files changed, 1743 insertions(+), 1770 deletions(-) [+] |
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--- a/delphine Thu Apr 25 12:49:05 2019 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,30 +0,0 @@ ------BEGIN RSA PRIVATE KEY----- -Proc-Type: 4,ENCRYPTED -DEK-Info: AES-128-CBC,0F428118B5D165772A9B414AC1C31A31 - -EjQgREw0ka00AK6us4JLeTo/M3/w74KeyrZLbuGvh5PC5LcrMjfCGC3tTbnD33MP -lZNFdPBw3aGfhweRCThTtB9v+GxRYgYvv7IWoOycaCoAaR+KnYnalgQLgQUhSO5Q -wCuoY4sI6liM5RmpScezlGjTcOr3FFDhtz+roeGI3Te/3KJX/B3nQHc8LeG3Xu8C -yp76PGJQnZUAag+SUSMcxV/qYBnfqiTmtPZASyTtkNwgEHwjZcM+z/vAXit2rl8C -LlU/IjD/82olYM2UTFVlW32DInlgX7oUjo7pKl1cFJpkCfbGKWg1MsdVPNb4uE0h -KuDdOmHQFPluQUJEKPmhO9NfJypR+/7zJVZQSe20APBxZ3teGPR1Adk1A9VJQWyj -imgvoJmnwFj+Xds5I0clin0nJle0WSZfj5nfV7UEgJGxXaszKV1bIbUVRRJY5FfL -6meAo6AvgMRJD4fZp7CP8GtYJGLfD0vpBIMvj1Aqzu5OtxvGF5zls15K+NvVQIfg -UyQxwJbVePqEdv5+vDum3faapYIjjNF/gbQ09U7iTmcTXTWyrJEB47Q7AKnBc/SV -j7nR6/1HaKwpY5LmPp+CgoX7lm6L9B9hxFYZCiUsNSyl4nmjPDEvSST6yLNOYKgA -2Ia12aKlakqm8p3rjJ2OVDyPO5kbKw0r7u3yqjdfnd/kL1mdM2//0ti9k1kEl928 -qeaYfKUXCXjVuG5a3m4KHIOXEKd/5hnkRaG+IZxR2ZBt/M4n+Uj1Rivw0FL503TL -ms71iJ5YonaPoAgrj7mcKIWTHmcSARwUihuUaZGG9N0WX3S3A+z0HCoqWFHXyIEs -UfsqVMiucTuHyeNwQLTYmvN5EB8r54c4NyACVt6nsnYz87CtLqmXpQDBMGUjXUYA -dpIIXSml0WYoQiLw0jSrp18UlWEidaED2aukax6LNTHYrN0GQ+GCVoIYiVpAGQDX -2LJ/VCVSYVStLZjOSRBWHskbLeXfUkQaoPQEL+5K/c7a0c4IJxSluirKufZ7xn3+ -LrUiyomy71kijrrpY1rIHwcAIHPxXI3avJMxq5tZYR5wEqQkH0eWsy8yew73ejyQ -rY+k7nWVFaE/oW0cBo814HJ70BuFhaRJ2siEQvs5RpXevlnhyfZao1X/J7ZUg9l+ -+TUVcEGUwCyagIEQebzp38Y9rQfh3ek3j8TM5vxIuFxkdVNtH+pgF09vX/QyqLcE -CwybkCYyOjEYveGCaHTHedih+YqCGbiBQvw+b14AnZBWivusnXHogpY9WJTis+eW -6EXrdt05ExqypISt/B6EnZWEv3Tc80TPcvf64Z61PabY8f2lvbq2mPaKKxYEvuuy -5R6qfX28zaRFp3MOQ753DAwNWwdwha1ZIglndLw3M9CAI2emn+4yLod7h6b/hl4Y -TNAtcD4zUWH9KkN7diPjIc2W2njZ00bu1TcT/jShHiTdY7i9w7VrUWcvQISrpbCS -TpYLYqY10D9SLO7lPU27jFGe5Mcbsw2JFkJjG+JwEIkLzoIDDSFL3RIkZ+Ql1nDT -hk9pxr+k+V0dyp+Ul2TGFZC/vIB22a9sBRodNYzxKDtbRjNrDEqEe8QzQwfI/if5 ------END RSA PRIVATE KEY-----
--- a/delphine.pub Thu Apr 25 12:49:05 2019 -0400 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,1 +0,0 @@ -ssh-rsa AAAAB3NzaC1yc2EAAAADAQABAAABAQCutrZRQSP+aGOboaDMnrazTziyuI9iAeK9CVtgOCKFzg5c+oBj7pkGPiYsWnJpYWn8vHyhAk/VSCmPHHlGR3aNMKg1x1NKNQXzodljdnXfAMs012rZnI4r8Gl/ww6rhVFfbxptVIKNdZxlLBDBxjvWJ6G6Y8MqGPCpFQsFWtKPRgYl9A8UNqtReindJKOc/TuIFFeHvuPMSU7m2ZqCMuKGCjbWPU9RwvPuYURxYiTXP7ooMZLRD1tbc+vQUGIMDX+gXpQ7ntonZVtDGxC5qQJeUKVtGgp1RKKJ4Zbje5UNd47E3TiJQPMgJJL8TqjjHcFQBqtQVyzBJdVlnHxCgnoB chris@GED-Server
--- a/small_rna_maps.py Thu Apr 25 12:49:05 2019 -0400 +++ b/small_rna_maps.py Fri Oct 04 04:33:53 2019 -0400 @@ -243,9 +243,9 @@ map_dictionary[(chrom, pos+1, 'F')] = [] for key in map_dictionary: coverage = self.bam_object.count_coverage( - reference=key[0], + contig=key[0], start=key[1]-1, - end=key[1], + stop=key[1], quality_threshold=quality) """ Add the 4 coverage values """ coverage = [sum(x) for x in zip(*coverage)] @@ -298,7 +298,7 @@ sizeness[size] += sizedic[chrom][polarity][size] Strandbias = strandness['F'] + strandness['R'] if Strandbias: - Strandbias = strandness['F'] / float(Strandbias) + Strandbias = round(strandness['F'] / float(Strandbias), 2) else: Strandbias = 2 Mean = numpy.mean(sizeness.values()) @@ -313,10 +313,10 @@ try: line = [self.sample_name, chrom, polarity, size, sizedic[chrom][polarity][size], - Strandbias, sizeness[size]] + Strandbias, round(sizeness[size], 3)] except KeyError: line = [self.sample_name, chrom, polarity, size, 0, - Strandbias, sizeness[size]] + Strandbias, round(sizeness[size], 3)] line = [str(i) for i in line] out.write('\t'.join(line) + '\n')
--- a/small_rna_maps.xml Thu Apr 25 12:49:05 2019 -0400 +++ b/small_rna_maps.xml Fri Oct 04 04:33:53 2019 -0400 @@ -1,13 +1,15 @@ -<tool id="small_rna_maps" name="small_rna_maps" version="2.14.0"> +<tool id="small_rna_maps" name="small_rna_maps" version="2.15.0"> <description></description> <requirements> <requirement type="package" version="1.11.2=py27_0">numpy</requirement> - <requirement type="package" version="0.11.2.1=py27_0">pysam</requirement> - <requirement type="package" version="1.3.2=r3.3.2_0">r-optparse</requirement> - <requirement type="package" version="0.6_28=r3.3.2_0">r-latticeextra</requirement> - <requirement type="package" version="2.2.1=r3.3.2_0">r-gridextra</requirement> - <requirement type="package" version="1.4.2=r3.3.2_0">r-reshape2</requirement> + <requirement type="package" version="0.15.3=py27hda2845c_1">pysam</requirement> + <requirement type="package" version="1.6.4=r36h6115d3f_0">r-optparse</requirement> + <requirement type="package" version="0.6_28=r36h6115d3f_1002">r-latticeextra</requirement> + <requirement type="package" version="2.3=r36h6115d3f_1002">r-gridextra</requirement> + <requirement type="package" version="1.4.3=r36h29659fb_0">r-reshape2</requirement> <requirement type="package" version="0.6.6">sambamba</requirement> + <requirement type="package" version="1.9=h10a08f8_12">samtools</requirement> + <requirement type="package" version="64.2=he1b5a44_1">icu</requirement> </requirements> <stdio> <exit_code range="1:" level="fatal" description="Tool exception" /> @@ -79,7 +81,9 @@ <param name="inputs" type="data" format="bam" label="Select a alignment files to parse" multiple="true" help="maps from these bam inputs will be collected in a single pdf output" /> <param name="normalization" type="text" label="Enter a size/normalization factor." - help="Enter normalisation factors separated by space eg [0.75 1.23 1.1], no normalization if no values" value="1"/> + help="Enter normalisation factors separated by space eg [0.75 1.23 1.1], no normalization if no values, + ignored if a single sample" + value="1"/> <param name="minsize" type="integer" label="Minimal size of reads for inclusion in analysis" value="19" help="default value: 19" /> <param name="maxsize" type="integer" label="Maximal size of reads for inclusion in analysis"
--- a/test-data/input1_input2_size.tab Thu Apr 25 12:49:05 2019 -0400 +++ b/test-data/input1_input2_size.tab Fri Oct 04 04:33:53 2019 -0400 @@ -1,694 +1,694 @@ # Dataset Chromosome Polarity Size Counts Strandness z-score -input1.bam FBtr0070001 F 19 1 1.0 -0.448696330732 -input1.bam FBtr0070001 F 20 4 1.0 -0.104347983891 -input1.bam FBtr0070001 F 21 4 1.0 -0.104347983891 -input1.bam FBtr0070001 F 22 29 1.0 2.76522157312 -input1.bam FBtr0070001 F 23 15 1.0 1.15826262119 -input1.bam FBtr0070001 F 24 1 1.0 -0.448696330732 -input1.bam FBtr0070001 F 25 0 1.0 -0.563479113013 -input1.bam FBtr0070001 F 26 0 1.0 -0.563479113013 -input1.bam FBtr0070001 F 27 0 1.0 -0.563479113013 -input1.bam FBtr0070001 F 28 0 1.0 -0.563479113013 -input1.bam FBtr0070001 F 29 0 1.0 -0.563479113013 -input1.bam FBtr0070533 F 19 3 1.0 1.27519650491 -input1.bam FBtr0070533 F 20 2 1.0 0.536924844171 -input1.bam FBtr0070533 F 21 2 1.0 0.536924844171 -input1.bam FBtr0070533 F 22 4 1.0 2.01346816564 -input1.bam FBtr0070533 F 23 2 1.0 0.536924844171 -input1.bam FBtr0070533 F 24 0 1.0 -0.9396184773 -input1.bam FBtr0070533 F 25 1 1.0 -0.201346816564 -input1.bam FBtr0070533 F 26 0 1.0 -0.9396184773 -input1.bam FBtr0070533 F 27 0 1.0 -0.9396184773 -input1.bam FBtr0070533 F 28 0 1.0 -0.9396184773 -input1.bam FBtr0070533 F 29 0 1.0 -0.9396184773 -input1.bam FBtr0070603 F 19 1 1.0 -0.874157276122 -input1.bam FBtr0070603 F 20 6 1.0 0.906533471533 -input1.bam FBtr0070603 F 21 3 1.0 -0.16188097706 -input1.bam FBtr0070603 F 22 3 1.0 -0.16188097706 -input1.bam FBtr0070603 F 23 10 1.0 2.33108606966 -input1.bam FBtr0070603 F 24 2 1.0 -0.518019126591 -input1.bam FBtr0070603 F 25 5 1.0 0.550395322002 -input1.bam FBtr0070603 F 26 5 1.0 0.550395322002 -input1.bam FBtr0070603 F 27 3 1.0 -0.16188097706 -input1.bam FBtr0070603 F 28 0 1.0 -1.23029542565 -input1.bam FBtr0070603 F 29 0 1.0 -1.23029542565 -input1.bam FBtr0070604 F 19 2 1.0 -0.185793425342 -input1.bam FBtr0070604 F 20 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 21 1 1.0 -0.331773973825 -input1.bam FBtr0070604 F 22 23 1.0 2.8797980928 -input1.bam FBtr0070604 F 23 10 1.0 0.982050962522 -input1.bam FBtr0070604 F 24 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 25 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 26 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 27 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 28 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 29 0 1.0 -0.477754522308 -input1.bam FBtr0070911 F 19 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 20 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 21 1 1.0 3.16227766017 -input1.bam FBtr0070911 F 22 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 23 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 24 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 25 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 26 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 27 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 28 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 29 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 19 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 20 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 21 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 22 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 23 1 1.0 3.16227766017 -input1.bam FBtr0078490 F 24 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 25 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 26 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 27 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 28 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 29 0 1.0 -0.316227766017 -input1.bam FBtr0078580 F 19 8 1.0 -0.450200695898 -input1.bam FBtr0078580 F 20 9 1.0 -0.436595729813 -input1.bam FBtr0078580 F 21 5 1.0 -0.491015594153 -input1.bam FBtr0078580 F 22 13 1.0 -0.382175865474 -input1.bam FBtr0078580 F 23 5 1.0 -0.491015594153 -input1.bam FBtr0078580 F 24 180 1.0 1.88985347069 -input1.bam FBtr0078580 F 25 212 1.0 2.32521238541 -input1.bam FBtr0078580 F 26 1 1.0 -0.545435458492 -input1.bam FBtr0078580 F 27 2 1.0 -0.531830492407 -input1.bam FBtr0078580 F 28 17 1.0 -0.327756001135 -input1.bam FBtr0078580 F 29 0 1.0 -0.559040424577 -input1.bam FBtr0078790 F 19 2 1.0 1.54713186939 -input1.bam FBtr0078790 F 20 2 1.0 1.54713186939 -input1.bam FBtr0078790 F 21 0 1.0 -0.721994872381 -input1.bam FBtr0078790 F 22 2 1.0 1.54713186939 -input1.bam FBtr0078790 F 23 1 1.0 0.412568498504 -input1.bam FBtr0078790 F 24 0 1.0 -0.721994872381 -input1.bam FBtr0078790 F 25 0 1.0 -0.721994872381 -input1.bam FBtr0078790 F 26 0 1.0 -0.721994872381 -input1.bam FBtr0078790 F 27 0 1.0 -0.721994872381 -input1.bam FBtr0078790 F 28 0 1.0 -0.721994872381 -input1.bam FBtr0078790 F 29 0 1.0 -0.721994872381 -input1.bam FBtr0079064 F 19 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 20 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 21 1 1.0 3.16227766017 -input1.bam FBtr0079064 F 22 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 23 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 24 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 25 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 26 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 27 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 28 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 29 0 1.0 -0.316227766017 -input1.bam FBtr0079090 F 19 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 F 20 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 F 21 0 0.666666666667 1.63299316186 -input1.bam FBtr0079090 F 22 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 F 23 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 F 24 1 0.666666666667 1.63299316186 -input1.bam FBtr0079090 F 25 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 F 26 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 F 27 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 F 28 1 0.666666666667 1.63299316186 -input1.bam FBtr0079090 F 29 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 19 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 20 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 21 1 0.666666666667 1.63299316186 -input1.bam FBtr0079090 R 22 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 23 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 24 0 0.666666666667 1.63299316186 -input1.bam FBtr0079090 R 25 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 26 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 27 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 28 0 0.666666666667 1.63299316186 -input1.bam FBtr0079090 R 29 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079338 F 19 1 1.0 0.0496291666985 -input1.bam FBtr0079338 F 20 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 21 3 1.0 1.14147083407 -input1.bam FBtr0079338 F 22 6 1.0 2.77923333512 -input1.bam FBtr0079338 F 23 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 24 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 25 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 26 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 27 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 28 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 29 0 1.0 -0.496291666985 -input1.bam FBtr0079528 F 19 4 1.0 -0.320526584152 -input1.bam FBtr0079528 F 20 12 1.0 0.509071633653 -input1.bam FBtr0079528 F 21 3 1.0 -0.424226361378 -input1.bam FBtr0079528 F 22 2 1.0 -0.527926138604 -input1.bam FBtr0079528 F 23 3 1.0 -0.424226361378 -input1.bam FBtr0079528 F 24 36 1.0 2.99786628707 -input1.bam FBtr0079528 F 25 8 1.0 0.0942725247506 -input1.bam FBtr0079528 F 26 5 1.0 -0.216826806926 -input1.bam FBtr0079528 F 27 2 1.0 -0.527926138604 -input1.bam FBtr0079528 F 28 2 1.0 -0.527926138604 -input1.bam FBtr0079528 F 29 1 1.0 -0.631625915829 -input1.bam FBtr0079596 F 19 10 1.0 0.911805452636 -input1.bam FBtr0079596 F 20 13 1.0 1.44911938008 -input1.bam FBtr0079596 F 21 3 1.0 -0.341927044739 -input1.bam FBtr0079596 F 22 16 1.0 1.98643330753 -input1.bam FBtr0079596 F 23 8 1.0 0.553596167672 -input1.bam 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0 1.0 -0.693 +input2.bam FBtr0079338 F 29 0 1.0 -0.693 +input2.bam FBtr0079528 F 19 34 1.0 2.975 +input2.bam FBtr0079528 F 20 8 1.0 0.194 +input2.bam FBtr0079528 F 21 8 1.0 0.194 +input2.bam FBtr0079528 F 22 8 1.0 0.194 +input2.bam FBtr0079528 F 23 4 1.0 -0.233 +input2.bam FBtr0079528 F 24 1 1.0 -0.554 +input2.bam FBtr0079528 F 25 1 1.0 -0.554 +input2.bam FBtr0079528 F 26 4 1.0 -0.233 +input2.bam FBtr0079528 F 27 0 1.0 -0.661 +input2.bam FBtr0079528 F 28 0 1.0 -0.661 +input2.bam FBtr0079528 F 29 0 1.0 -0.661 +input2.bam FBtr0079596 F 19 48 0.99 1.617 +input2.bam FBtr0079596 F 20 49 0.99 1.666 +input2.bam FBtr0079596 F 21 40 0.99 1.272 +input2.bam FBtr0079596 F 22 26 0.99 0.533 +input2.bam FBtr0079596 F 23 2 0.99 -0.649 +input2.bam FBtr0079596 F 24 1 0.99 -0.699 +input2.bam FBtr0079596 F 25 0 0.99 -0.748 +input2.bam FBtr0079596 F 26 0 0.99 -0.748 +input2.bam FBtr0079596 F 27 0 0.99 -0.748 +input2.bam FBtr0079596 F 28 0 0.99 -0.748 +input2.bam FBtr0079596 F 29 0 0.99 -0.748 +input2.bam FBtr0079596 R 19 0 0.99 1.617 +input2.bam FBtr0079596 R 20 0 0.99 1.666 +input2.bam FBtr0079596 R 21 1 0.99 1.272 +input2.bam FBtr0079596 R 22 0 0.99 0.533 +input2.bam FBtr0079596 R 23 0 0.99 -0.649 +input2.bam FBtr0079596 R 24 0 0.99 -0.699 +input2.bam FBtr0079596 R 25 0 0.99 -0.748 +input2.bam FBtr0079596 R 26 0 0.99 -0.748 +input2.bam FBtr0079596 R 27 0 0.99 -0.748 +input2.bam FBtr0079596 R 28 0 0.99 -0.748 +input2.bam FBtr0079596 R 29 0 0.99 -0.748 +input2.bam FBtr0079677 F 19 1 1.0 2.121 +input2.bam FBtr0079677 F 20 1 1.0 2.121 +input2.bam FBtr0079677 F 21 0 1.0 -0.471 +input2.bam FBtr0079677 F 22 0 1.0 -0.471 +input2.bam FBtr0079677 F 23 0 1.0 -0.471 +input2.bam FBtr0079677 F 24 0 1.0 -0.471 +input2.bam FBtr0079677 F 25 0 1.0 -0.471 +input2.bam FBtr0079677 F 26 0 1.0 -0.471 +input2.bam FBtr0079677 F 27 0 1.0 -0.471 +input2.bam FBtr0079677 F 28 0 1.0 -0.471 +input2.bam FBtr0079677 F 29 0 1.0 -0.471 +input2.bam FBtr0079690 F 19 0 1.0 -0.442 +input2.bam FBtr0079690 F 20 2 1.0 2.801 +input2.bam FBtr0079690 F 21 1 1.0 1.18 +input2.bam FBtr0079690 F 22 0 1.0 -0.442 +input2.bam FBtr0079690 F 23 0 1.0 -0.442 +input2.bam FBtr0079690 F 24 0 1.0 -0.442 +input2.bam FBtr0079690 F 25 0 1.0 -0.442 +input2.bam FBtr0079690 F 26 0 1.0 -0.442 +input2.bam FBtr0079690 F 27 0 1.0 -0.442 +input2.bam FBtr0079690 F 28 0 1.0 -0.442 +input2.bam FBtr0079690 F 29 0 1.0 -0.442 +input2.bam FBtr0079692 F 19 0 1.0 -0.471 +input2.bam FBtr0079692 F 20 0 1.0 -0.471 +input2.bam FBtr0079692 F 21 1 1.0 2.121 +input2.bam FBtr0079692 F 22 1 1.0 2.121 +input2.bam FBtr0079692 F 23 0 1.0 -0.471 +input2.bam FBtr0079692 F 24 0 1.0 -0.471 +input2.bam FBtr0079692 F 25 0 1.0 -0.471 +input2.bam FBtr0079692 F 26 0 1.0 -0.471 +input2.bam FBtr0079692 F 27 0 1.0 -0.471 +input2.bam FBtr0079692 F 28 0 1.0 -0.471 +input2.bam FBtr0079692 F 29 0 1.0 -0.471 +input2.bam FBtr0079693 F 19 0 1.0 -0.316 +input2.bam FBtr0079693 F 20 2 1.0 3.162 +input2.bam FBtr0079693 F 21 0 1.0 -0.316 +input2.bam FBtr0079693 F 22 0 1.0 -0.316 +input2.bam FBtr0079693 F 23 0 1.0 -0.316 +input2.bam FBtr0079693 F 24 0 1.0 -0.316 +input2.bam FBtr0079693 F 25 0 1.0 -0.316 +input2.bam FBtr0079693 F 26 0 1.0 -0.316 +input2.bam FBtr0079693 F 27 0 1.0 -0.316 +input2.bam FBtr0079693 F 28 0 1.0 -0.316 +input2.bam FBtr0079693 F 29 0 1.0 -0.316 +input2.bam FBtr0079694 F 19 1 1.0 3.162 +input2.bam FBtr0079694 F 20 0 1.0 -0.316 +input2.bam FBtr0079694 F 21 0 1.0 -0.316 +input2.bam FBtr0079694 F 22 0 1.0 -0.316 +input2.bam FBtr0079694 F 23 0 1.0 -0.316 +input2.bam FBtr0079694 F 24 0 1.0 -0.316 +input2.bam FBtr0079694 F 25 0 1.0 -0.316 +input2.bam FBtr0079694 F 26 0 1.0 -0.316 +input2.bam FBtr0079694 F 27 0 1.0 -0.316 +input2.bam FBtr0079694 F 28 0 1.0 -0.316 +input2.bam FBtr0079694 F 29 0 1.0 -0.316 +input2.bam FBtr0079702 F 19 0 2 0.0 +input2.bam FBtr0079702 F 20 0 2 0.0 +input2.bam FBtr0079702 F 21 0 2 0.0 +input2.bam FBtr0079702 F 22 0 2 0.0 +input2.bam FBtr0079702 F 23 0 2 0.0 +input2.bam FBtr0079702 F 24 0 2 0.0 +input2.bam FBtr0079702 F 25 0 2 0.0 +input2.bam FBtr0079702 F 26 0 2 0.0 +input2.bam FBtr0079702 F 27 0 2 0.0 +input2.bam FBtr0079702 F 28 0 2 0.0 +input2.bam FBtr0079702 F 29 0 2 0.0 +input2.bam FBtr0079728 F 19 0 2 0.0 +input2.bam FBtr0079728 F 20 0 2 0.0 +input2.bam FBtr0079728 F 21 0 2 0.0 +input2.bam FBtr0079728 F 22 0 2 0.0 +input2.bam FBtr0079728 F 23 0 2 0.0 +input2.bam FBtr0079728 F 24 0 2 0.0 +input2.bam FBtr0079728 F 25 0 2 0.0 +input2.bam FBtr0079728 F 26 0 2 0.0 +input2.bam FBtr0079728 F 27 0 2 0.0 +input2.bam FBtr0079728 F 28 0 2 0.0 +input2.bam FBtr0079728 F 29 0 2 0.0 +input2.bam FBtr0079729 F 19 0 2 0.0 +input2.bam FBtr0079729 F 20 0 2 0.0 +input2.bam FBtr0079729 F 21 0 2 0.0 +input2.bam FBtr0079729 F 22 0 2 0.0 +input2.bam FBtr0079729 F 23 0 2 0.0 +input2.bam FBtr0079729 F 24 0 2 0.0 +input2.bam FBtr0079729 F 25 0 2 0.0 +input2.bam FBtr0079729 F 26 0 2 0.0 +input2.bam FBtr0079729 F 27 0 2 0.0 +input2.bam FBtr0079729 F 28 0 2 0.0 +input2.bam FBtr0079729 F 29 0 2 0.0 +input2.bam FBtr0079752 F 19 0 1.0 -0.316 +input2.bam FBtr0079752 F 20 0 1.0 -0.316 +input2.bam FBtr0079752 F 21 0 1.0 -0.316 +input2.bam FBtr0079752 F 22 0 1.0 -0.316 +input2.bam FBtr0079752 F 23 0 1.0 -0.316 +input2.bam FBtr0079752 F 24 1 1.0 3.162 +input2.bam FBtr0079752 F 25 0 1.0 -0.316 +input2.bam FBtr0079752 F 26 0 1.0 -0.316 +input2.bam FBtr0079752 F 27 0 1.0 -0.316 +input2.bam FBtr0079752 F 28 0 1.0 -0.316 +input2.bam FBtr0079752 F 29 0 1.0 -0.316 +input2.bam FBtr0079820 F 19 25 1.0 2.126 +input2.bam FBtr0079820 F 20 24 1.0 2.019 +input2.bam FBtr0079820 F 21 7 1.0 0.195 +input2.bam FBtr0079820 F 22 1 1.0 -0.449 +input2.bam FBtr0079820 F 23 0 1.0 -0.556 +input2.bam FBtr0079820 F 24 0 1.0 -0.556 +input2.bam FBtr0079820 F 25 0 1.0 -0.556 +input2.bam FBtr0079820 F 26 0 1.0 -0.556 +input2.bam FBtr0079820 F 27 0 1.0 -0.556 +input2.bam FBtr0079820 F 28 0 1.0 -0.556 +input2.bam FBtr0079820 F 29 0 1.0 -0.556 +input2.bam FBtr0080609 F 19 2 1.0 2.357 +input2.bam FBtr0080609 F 20 0 1.0 -0.693 +input2.bam FBtr0080609 F 21 0 1.0 -0.693 +input2.bam FBtr0080609 F 22 1 1.0 0.832 +input2.bam FBtr0080609 F 23 1 1.0 0.832 +input2.bam FBtr0080609 F 24 0 1.0 -0.693 +input2.bam FBtr0080609 F 25 1 1.0 0.832 +input2.bam FBtr0080609 F 26 0 1.0 -0.693 +input2.bam FBtr0080609 F 27 0 1.0 -0.693 +input2.bam FBtr0080609 F 28 0 1.0 -0.693 +input2.bam FBtr0080609 F 29 0 1.0 -0.693 +input2.bam FBtr0080644 F 19 0 2 0.0 +input2.bam FBtr0080644 F 20 0 2 0.0 +input2.bam FBtr0080644 F 21 0 2 0.0 +input2.bam FBtr0080644 F 22 0 2 0.0 +input2.bam FBtr0080644 F 23 0 2 0.0 +input2.bam FBtr0080644 F 24 0 2 0.0 +input2.bam FBtr0080644 F 25 0 2 0.0 +input2.bam FBtr0080644 F 26 0 2 0.0 +input2.bam FBtr0080644 F 27 0 2 0.0 +input2.bam FBtr0080644 F 28 0 2 0.0 +input2.bam FBtr0080644 F 29 0 2 0.0 +input2.bam FBtr0080646 F 19 0 1.0 -0.316 +input2.bam FBtr0080646 F 20 0 1.0 -0.316 +input2.bam FBtr0080646 F 21 1 1.0 3.162 +input2.bam FBtr0080646 F 22 0 1.0 -0.316 +input2.bam FBtr0080646 F 23 0 1.0 -0.316 +input2.bam FBtr0080646 F 24 0 1.0 -0.316 +input2.bam FBtr0080646 F 25 0 1.0 -0.316 +input2.bam FBtr0080646 F 26 0 1.0 -0.316 +input2.bam FBtr0080646 F 27 0 1.0 -0.316 +input2.bam FBtr0080646 F 28 0 1.0 -0.316 +input2.bam FBtr0080646 F 29 0 1.0 -0.316 +input2.bam FBtr0080647 F 19 0 2 0.0 +input2.bam FBtr0080647 F 20 0 2 0.0 +input2.bam FBtr0080647 F 21 0 2 0.0 +input2.bam FBtr0080647 F 22 0 2 0.0 +input2.bam FBtr0080647 F 23 0 2 0.0 +input2.bam FBtr0080647 F 24 0 2 0.0 +input2.bam FBtr0080647 F 25 0 2 0.0 +input2.bam FBtr0080647 F 26 0 2 0.0 +input2.bam FBtr0080647 F 27 0 2 0.0 +input2.bam FBtr0080647 F 28 0 2 0.0 +input2.bam FBtr0080647 F 29 0 2 0.0 +input2.bam FBtr0080660 F 19 0 2 0.0 +input2.bam FBtr0080660 F 20 0 2 0.0 +input2.bam FBtr0080660 F 21 0 2 0.0 +input2.bam FBtr0080660 F 22 0 2 0.0 +input2.bam FBtr0080660 F 23 0 2 0.0 +input2.bam FBtr0080660 F 24 0 2 0.0 +input2.bam FBtr0080660 F 25 0 2 0.0 +input2.bam FBtr0080660 F 26 0 2 0.0 +input2.bam FBtr0080660 F 27 0 2 0.0 +input2.bam FBtr0080660 F 28 0 2 0.0 +input2.bam FBtr0080660 F 29 0 2 0.0 +input2.bam FBtr0080663 F 19 9 1.0 2.093 +input2.bam FBtr0080663 F 20 7 1.0 1.463 +input2.bam FBtr0080663 F 21 4 1.0 0.516 +input2.bam FBtr0080663 F 22 5 1.0 0.832 +input2.bam FBtr0080663 F 23 0 1.0 -0.746 +input2.bam FBtr0080663 F 24 1 1.0 -0.43 +input2.bam FBtr0080663 F 25 0 1.0 -0.746 +input2.bam FBtr0080663 F 26 0 1.0 -0.746 +input2.bam FBtr0080663 F 27 0 1.0 -0.746 +input2.bam FBtr0080663 F 28 0 1.0 -0.746 +input2.bam FBtr0080663 F 29 0 1.0 -0.746 +input2.bam FBtr0080664 F 19 24 0.97 2.194 +input2.bam FBtr0080664 F 20 21 0.97 1.821 +input2.bam FBtr0080664 F 21 8 0.97 0.204 +input2.bam FBtr0080664 F 22 4 0.97 -0.17 +input2.bam FBtr0080664 F 23 4 0.97 -0.17 +input2.bam FBtr0080664 F 24 0 0.97 -0.792 +input2.bam FBtr0080664 F 25 3 0.97 -0.419 +input2.bam FBtr0080664 F 26 4 0.97 -0.294 +input2.bam FBtr0080664 F 27 0 0.97 -0.792 +input2.bam FBtr0080664 F 28 0 0.97 -0.792 +input2.bam FBtr0080664 F 29 0 0.97 -0.792 +input2.bam FBtr0080664 R 19 0 0.97 2.194 +input2.bam FBtr0080664 R 20 0 0.97 1.821 +input2.bam FBtr0080664 R 21 0 0.97 0.204 +input2.bam FBtr0080664 R 22 1 0.97 -0.17 +input2.bam FBtr0080664 R 23 1 0.97 -0.17 +input2.bam FBtr0080664 R 24 0 0.97 -0.792 +input2.bam FBtr0080664 R 25 0 0.97 -0.419 +input2.bam FBtr0080664 R 26 0 0.97 -0.294 +input2.bam FBtr0080664 R 27 0 0.97 -0.792 +input2.bam FBtr0080664 R 28 0 0.97 -0.792 +input2.bam FBtr0080664 R 29 0 0.97 -0.792
--- a/test-data/input1_min20_max30_size.tab Thu Apr 25 12:49:05 2019 -0400 +++ b/test-data/input1_min20_max30_size.tab Fri Oct 04 04:33:53 2019 -0400 @@ -1,342 +1,342 @@ # Dataset Chromosome Polarity Size Counts Strandness z-score -input1.bam FBtr0070001 F 19 1 1.0 -0.448696330732 -input1.bam FBtr0070001 F 20 4 1.0 -0.104347983891 -input1.bam FBtr0070001 F 21 4 1.0 -0.104347983891 -input1.bam FBtr0070001 F 22 29 1.0 2.76522157312 -input1.bam FBtr0070001 F 23 15 1.0 1.15826262119 -input1.bam FBtr0070001 F 24 1 1.0 -0.448696330732 -input1.bam FBtr0070001 F 25 0 1.0 -0.563479113013 -input1.bam FBtr0070001 F 26 0 1.0 -0.563479113013 -input1.bam FBtr0070001 F 27 0 1.0 -0.563479113013 -input1.bam FBtr0070001 F 28 0 1.0 -0.563479113013 -input1.bam FBtr0070001 F 29 0 1.0 -0.563479113013 -input1.bam FBtr0070533 F 19 3 1.0 1.27519650491 -input1.bam FBtr0070533 F 20 2 1.0 0.536924844171 -input1.bam FBtr0070533 F 21 2 1.0 0.536924844171 -input1.bam FBtr0070533 F 22 4 1.0 2.01346816564 -input1.bam FBtr0070533 F 23 2 1.0 0.536924844171 -input1.bam FBtr0070533 F 24 0 1.0 -0.9396184773 -input1.bam FBtr0070533 F 25 1 1.0 -0.201346816564 -input1.bam FBtr0070533 F 26 0 1.0 -0.9396184773 -input1.bam FBtr0070533 F 27 0 1.0 -0.9396184773 -input1.bam FBtr0070533 F 28 0 1.0 -0.9396184773 -input1.bam FBtr0070533 F 29 0 1.0 -0.9396184773 -input1.bam FBtr0070603 F 19 1 1.0 -0.874157276122 -input1.bam FBtr0070603 F 20 6 1.0 0.906533471533 -input1.bam FBtr0070603 F 21 3 1.0 -0.16188097706 -input1.bam FBtr0070603 F 22 3 1.0 -0.16188097706 -input1.bam FBtr0070603 F 23 10 1.0 2.33108606966 -input1.bam FBtr0070603 F 24 2 1.0 -0.518019126591 -input1.bam FBtr0070603 F 25 5 1.0 0.550395322002 -input1.bam FBtr0070603 F 26 5 1.0 0.550395322002 -input1.bam FBtr0070603 F 27 3 1.0 -0.16188097706 -input1.bam FBtr0070603 F 28 0 1.0 -1.23029542565 -input1.bam FBtr0070603 F 29 0 1.0 -1.23029542565 -input1.bam FBtr0070604 F 19 2 1.0 -0.185793425342 -input1.bam FBtr0070604 F 20 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 21 1 1.0 -0.331773973825 -input1.bam FBtr0070604 F 22 23 1.0 2.8797980928 -input1.bam FBtr0070604 F 23 10 1.0 0.982050962522 -input1.bam FBtr0070604 F 24 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 25 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 26 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 27 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 28 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 29 0 1.0 -0.477754522308 -input1.bam FBtr0070911 F 19 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 20 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 21 1 1.0 3.16227766017 -input1.bam FBtr0070911 F 22 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 23 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 24 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 25 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 26 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 27 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 28 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 29 0 1.0 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+input1.bam FBtr0078490 F 20 0 1.0 -0.316 +input1.bam FBtr0078490 F 21 0 1.0 -0.316 +input1.bam FBtr0078490 F 22 0 1.0 -0.316 +input1.bam FBtr0078490 F 23 1 1.0 3.162 +input1.bam FBtr0078490 F 24 0 1.0 -0.316 +input1.bam FBtr0078490 F 25 0 1.0 -0.316 +input1.bam FBtr0078490 F 26 0 1.0 -0.316 +input1.bam FBtr0078490 F 27 0 1.0 -0.316 +input1.bam FBtr0078490 F 28 0 1.0 -0.316 +input1.bam FBtr0078490 F 29 0 1.0 -0.316 +input1.bam FBtr0078580 F 19 8 1.0 -0.45 +input1.bam FBtr0078580 F 20 9 1.0 -0.437 +input1.bam FBtr0078580 F 21 5 1.0 -0.491 +input1.bam FBtr0078580 F 22 13 1.0 -0.382 +input1.bam FBtr0078580 F 23 5 1.0 -0.491 +input1.bam FBtr0078580 F 24 180 1.0 1.89 +input1.bam FBtr0078580 F 25 212 1.0 2.325 +input1.bam FBtr0078580 F 26 1 1.0 -0.545 +input1.bam FBtr0078580 F 27 2 1.0 -0.532 +input1.bam FBtr0078580 F 28 17 1.0 -0.328 +input1.bam FBtr0078580 F 29 0 1.0 -0.559 +input1.bam FBtr0078790 F 19 2 1.0 1.547 +input1.bam FBtr0078790 F 20 2 1.0 1.547 +input1.bam FBtr0078790 F 21 0 1.0 -0.722 +input1.bam FBtr0078790 F 22 2 1.0 1.547 +input1.bam FBtr0078790 F 23 1 1.0 0.413 +input1.bam FBtr0078790 F 24 0 1.0 -0.722 +input1.bam FBtr0078790 F 25 0 1.0 -0.722 +input1.bam FBtr0078790 F 26 0 1.0 -0.722 +input1.bam FBtr0078790 F 27 0 1.0 -0.722 +input1.bam FBtr0078790 F 28 0 1.0 -0.722 +input1.bam FBtr0078790 F 29 0 1.0 -0.722 +input1.bam FBtr0079064 F 19 0 1.0 -0.316 +input1.bam FBtr0079064 F 20 0 1.0 -0.316 +input1.bam FBtr0079064 F 21 1 1.0 3.162 +input1.bam FBtr0079064 F 22 0 1.0 -0.316 +input1.bam FBtr0079064 F 23 0 1.0 -0.316 +input1.bam FBtr0079064 F 24 0 1.0 -0.316 +input1.bam FBtr0079064 F 25 0 1.0 -0.316 +input1.bam FBtr0079064 F 26 0 1.0 -0.316 +input1.bam FBtr0079064 F 27 0 1.0 -0.316 +input1.bam FBtr0079064 F 28 0 1.0 -0.316 +input1.bam FBtr0079064 F 29 0 1.0 -0.316 +input1.bam FBtr0079090 F 19 0 0.67 -0.612 +input1.bam FBtr0079090 F 20 0 0.67 -0.612 +input1.bam FBtr0079090 F 21 0 0.67 1.633 +input1.bam FBtr0079090 F 22 0 0.67 -0.612 +input1.bam FBtr0079090 F 23 0 0.67 -0.612 +input1.bam FBtr0079090 F 24 1 0.67 1.633 +input1.bam FBtr0079090 F 25 0 0.67 -0.612 +input1.bam FBtr0079090 F 26 0 0.67 -0.612 +input1.bam FBtr0079090 F 27 0 0.67 -0.612 +input1.bam FBtr0079090 F 28 1 0.67 1.633 +input1.bam FBtr0079090 F 29 0 0.67 -0.612 +input1.bam FBtr0079090 R 19 0 0.67 -0.612 +input1.bam FBtr0079090 R 20 0 0.67 -0.612 +input1.bam FBtr0079090 R 21 1 0.67 1.633 +input1.bam FBtr0079090 R 22 0 0.67 -0.612 +input1.bam FBtr0079090 R 23 0 0.67 -0.612 +input1.bam FBtr0079090 R 24 0 0.67 1.633 +input1.bam FBtr0079090 R 25 0 0.67 -0.612 +input1.bam FBtr0079090 R 26 0 0.67 -0.612 +input1.bam FBtr0079090 R 27 0 0.67 -0.612 +input1.bam FBtr0079090 R 28 0 0.67 1.633 +input1.bam FBtr0079090 R 29 0 0.67 -0.612 +input1.bam FBtr0079338 F 19 1 1.0 0.05 +input1.bam FBtr0079338 F 20 0 1.0 -0.496 +input1.bam FBtr0079338 F 21 3 1.0 1.141 +input1.bam FBtr0079338 F 22 6 1.0 2.779 +input1.bam FBtr0079338 F 23 0 1.0 -0.496 +input1.bam FBtr0079338 F 24 0 1.0 -0.496 +input1.bam FBtr0079338 F 25 0 1.0 -0.496 +input1.bam FBtr0079338 F 26 0 1.0 -0.496 +input1.bam FBtr0079338 F 27 0 1.0 -0.496 +input1.bam FBtr0079338 F 28 0 1.0 -0.496 +input1.bam FBtr0079338 F 29 0 1.0 -0.496 +input1.bam FBtr0079528 F 19 4 1.0 -0.321 +input1.bam FBtr0079528 F 20 12 1.0 0.509 +input1.bam FBtr0079528 F 21 3 1.0 -0.424 +input1.bam FBtr0079528 F 22 2 1.0 -0.528 +input1.bam FBtr0079528 F 23 3 1.0 -0.424 +input1.bam FBtr0079528 F 24 36 1.0 2.998 +input1.bam FBtr0079528 F 25 8 1.0 0.094 +input1.bam FBtr0079528 F 26 5 1.0 -0.217 +input1.bam FBtr0079528 F 27 2 1.0 -0.528 +input1.bam FBtr0079528 F 28 2 1.0 -0.528 +input1.bam FBtr0079528 F 29 1 1.0 -0.632 +input1.bam FBtr0079596 F 19 10 1.0 0.912 +input1.bam FBtr0079596 F 20 13 1.0 1.449 +input1.bam FBtr0079596 F 21 3 1.0 -0.342 +input1.bam FBtr0079596 F 22 16 1.0 1.986 +input1.bam FBtr0079596 F 23 8 1.0 0.554 +input1.bam FBtr0079596 F 24 0 1.0 -0.879 +input1.bam FBtr0079596 F 25 0 1.0 -0.879 +input1.bam FBtr0079596 F 26 3 1.0 -0.342 +input1.bam FBtr0079596 F 27 1 1.0 -0.7 +input1.bam FBtr0079596 F 28 0 1.0 -0.879 +input1.bam FBtr0079596 F 29 0 1.0 -0.879 +input1.bam FBtr0079677 F 19 2 1.0 2.801 +input1.bam FBtr0079677 F 20 0 1.0 -0.442 +input1.bam FBtr0079677 F 21 0 1.0 -0.442 +input1.bam FBtr0079677 F 22 0 1.0 -0.442 +input1.bam FBtr0079677 F 23 1 1.0 1.18 +input1.bam FBtr0079677 F 24 0 1.0 -0.442 +input1.bam FBtr0079677 F 25 0 1.0 -0.442 +input1.bam FBtr0079677 F 26 0 1.0 -0.442 +input1.bam FBtr0079677 F 27 0 1.0 -0.442 +input1.bam FBtr0079677 F 28 0 1.0 -0.442 +input1.bam FBtr0079677 F 29 0 1.0 -0.442 +input1.bam FBtr0079690 F 19 0 1.0 -0.316 +input1.bam FBtr0079690 F 20 0 1.0 -0.316 +input1.bam FBtr0079690 F 21 0 1.0 -0.316 +input1.bam FBtr0079690 F 22 0 1.0 -0.316 +input1.bam FBtr0079690 F 23 0 1.0 -0.316 +input1.bam FBtr0079690 F 24 0 1.0 -0.316 +input1.bam FBtr0079690 F 25 1 1.0 3.162 +input1.bam FBtr0079690 F 26 0 1.0 -0.316 +input1.bam FBtr0079690 F 27 0 1.0 -0.316 +input1.bam FBtr0079690 F 28 0 1.0 -0.316 +input1.bam FBtr0079690 F 29 0 1.0 -0.316 +input1.bam FBtr0079692 F 19 1 1.0 1.633 +input1.bam FBtr0079692 F 20 1 1.0 1.633 +input1.bam FBtr0079692 F 21 0 1.0 -0.612 +input1.bam FBtr0079692 F 22 0 1.0 -0.612 +input1.bam FBtr0079692 F 23 1 1.0 1.633 +input1.bam FBtr0079692 F 24 0 1.0 -0.612 +input1.bam FBtr0079692 F 25 0 1.0 -0.612 +input1.bam FBtr0079692 F 26 0 1.0 -0.612 +input1.bam FBtr0079692 F 27 0 1.0 -0.612 +input1.bam FBtr0079692 F 28 0 1.0 -0.612 +input1.bam FBtr0079692 F 29 0 1.0 -0.612 +input1.bam FBtr0079693 F 19 0 1.0 -0.471 +input1.bam FBtr0079693 F 20 0 1.0 -0.471 +input1.bam FBtr0079693 F 21 0 1.0 -0.471 +input1.bam FBtr0079693 F 22 0 1.0 -0.471 +input1.bam FBtr0079693 F 23 1 1.0 2.121 +input1.bam FBtr0079693 F 24 1 1.0 2.121 +input1.bam FBtr0079693 F 25 0 1.0 -0.471 +input1.bam FBtr0079693 F 26 0 1.0 -0.471 +input1.bam FBtr0079693 F 27 0 1.0 -0.471 +input1.bam FBtr0079693 F 28 0 1.0 -0.471 +input1.bam FBtr0079693 F 29 0 1.0 -0.471 +input1.bam FBtr0079694 F 19 1 1.0 1.323 +input1.bam FBtr0079694 F 20 0 1.0 -0.756 +input1.bam FBtr0079694 F 21 0 1.0 -0.756 +input1.bam FBtr0079694 F 22 0 1.0 -0.756 +input1.bam FBtr0079694 F 23 1 1.0 1.323 +input1.bam FBtr0079694 F 24 1 1.0 1.323 +input1.bam FBtr0079694 F 25 1 1.0 1.323 +input1.bam FBtr0079694 F 26 0 1.0 -0.756 +input1.bam FBtr0079694 F 27 0 1.0 -0.756 +input1.bam FBtr0079694 F 28 0 1.0 -0.756 +input1.bam FBtr0079694 F 29 0 1.0 -0.756 +input1.bam FBtr0079702 F 19 0 2 0.0 +input1.bam FBtr0079702 F 20 0 2 0.0 +input1.bam FBtr0079702 F 21 0 2 0.0 +input1.bam FBtr0079702 F 22 0 2 0.0 +input1.bam FBtr0079702 F 23 0 2 0.0 +input1.bam FBtr0079702 F 24 0 2 0.0 +input1.bam FBtr0079702 F 25 0 2 0.0 +input1.bam FBtr0079702 F 26 0 2 0.0 +input1.bam FBtr0079702 F 27 0 2 0.0 +input1.bam FBtr0079702 F 28 0 2 0.0 +input1.bam FBtr0079702 F 29 0 2 0.0 +input1.bam FBtr0079728 F 19 0 1.0 -0.471 +input1.bam FBtr0079728 F 20 1 1.0 2.121 +input1.bam FBtr0079728 F 21 0 1.0 -0.471 +input1.bam FBtr0079728 F 22 0 1.0 -0.471 +input1.bam FBtr0079728 F 23 0 1.0 -0.471 +input1.bam FBtr0079728 F 24 1 1.0 2.121 +input1.bam FBtr0079728 F 25 0 1.0 -0.471 +input1.bam FBtr0079728 F 26 0 1.0 -0.471 +input1.bam FBtr0079728 F 27 0 1.0 -0.471 +input1.bam FBtr0079728 F 28 0 1.0 -0.471 +input1.bam FBtr0079728 F 29 0 1.0 -0.471 +input1.bam FBtr0079729 F 19 0 1.0 -0.316 +input1.bam FBtr0079729 F 20 0 1.0 -0.316 +input1.bam FBtr0079729 F 21 0 1.0 -0.316 +input1.bam FBtr0079729 F 22 1 1.0 3.162 +input1.bam FBtr0079729 F 23 0 1.0 -0.316 +input1.bam FBtr0079729 F 24 0 1.0 -0.316 +input1.bam FBtr0079729 F 25 0 1.0 -0.316 +input1.bam FBtr0079729 F 26 0 1.0 -0.316 +input1.bam FBtr0079729 F 27 0 1.0 -0.316 +input1.bam FBtr0079729 F 28 0 1.0 -0.316 +input1.bam FBtr0079729 F 29 0 1.0 -0.316 +input1.bam FBtr0079752 F 19 1 1.0 0.99 +input1.bam FBtr0079752 F 20 2 1.0 2.546 +input1.bam FBtr0079752 F 21 0 1.0 -0.566 +input1.bam FBtr0079752 F 22 0 1.0 -0.566 +input1.bam FBtr0079752 F 23 0 1.0 -0.566 +input1.bam FBtr0079752 F 24 1 1.0 0.99 +input1.bam FBtr0079752 F 25 0 1.0 -0.566 +input1.bam FBtr0079752 F 26 0 1.0 -0.566 +input1.bam FBtr0079752 F 27 0 1.0 -0.566 +input1.bam FBtr0079752 F 28 0 1.0 -0.566 +input1.bam FBtr0079752 F 29 0 1.0 -0.566 +input1.bam FBtr0079820 F 19 3 1.0 2.486 +input1.bam FBtr0079820 F 20 2 1.0 1.473 +input1.bam FBtr0079820 F 21 0 1.0 -0.552 +input1.bam FBtr0079820 F 22 0 1.0 -0.552 +input1.bam FBtr0079820 F 23 0 1.0 -0.552 +input1.bam FBtr0079820 F 24 1 1.0 0.46 +input1.bam FBtr0079820 F 25 0 1.0 -0.552 +input1.bam FBtr0079820 F 26 0 1.0 -0.552 +input1.bam FBtr0079820 F 27 0 1.0 -0.552 +input1.bam FBtr0079820 F 28 0 1.0 -0.552 +input1.bam FBtr0079820 F 29 0 1.0 -0.552 +input1.bam FBtr0080609 F 19 3 1.0 0.283 +input1.bam FBtr0080609 F 20 10 1.0 2.709 +input1.bam FBtr0080609 F 21 4 1.0 0.63 +input1.bam FBtr0080609 F 22 0 1.0 -0.756 +input1.bam FBtr0080609 F 23 4 1.0 0.63 +input1.bam FBtr0080609 F 24 1 1.0 -0.409 +input1.bam FBtr0080609 F 25 1 1.0 -0.409 +input1.bam FBtr0080609 F 26 1 1.0 -0.409 +input1.bam FBtr0080609 F 27 0 1.0 -0.756 +input1.bam FBtr0080609 F 28 0 1.0 -0.756 +input1.bam FBtr0080609 F 29 0 1.0 -0.756 +input1.bam FBtr0080644 F 19 0 1.0 -0.471 +input1.bam FBtr0080644 F 20 0 1.0 -0.471 +input1.bam FBtr0080644 F 21 0 1.0 -0.471 +input1.bam FBtr0080644 F 22 0 1.0 -0.471 +input1.bam FBtr0080644 F 23 0 1.0 -0.471 +input1.bam FBtr0080644 F 24 1 1.0 2.121 +input1.bam FBtr0080644 F 25 0 1.0 -0.471 +input1.bam FBtr0080644 F 26 0 1.0 -0.471 +input1.bam FBtr0080644 F 27 1 1.0 2.121 +input1.bam FBtr0080644 F 28 0 1.0 -0.471 +input1.bam FBtr0080644 F 29 0 1.0 -0.471 +input1.bam FBtr0080646 F 19 0 1.0 -0.471 +input1.bam FBtr0080646 F 20 0 1.0 -0.471 +input1.bam FBtr0080646 F 21 1 1.0 2.121 +input1.bam FBtr0080646 F 22 1 1.0 2.121 +input1.bam FBtr0080646 F 23 0 1.0 -0.471 +input1.bam FBtr0080646 F 24 0 1.0 -0.471 +input1.bam FBtr0080646 F 25 0 1.0 -0.471 +input1.bam FBtr0080646 F 26 0 1.0 -0.471 +input1.bam FBtr0080646 F 27 0 1.0 -0.471 +input1.bam FBtr0080646 F 28 0 1.0 -0.471 +input1.bam FBtr0080646 F 29 0 1.0 -0.471 +input1.bam FBtr0080647 F 19 0 1.0 -0.471 +input1.bam FBtr0080647 F 20 1 1.0 2.121 +input1.bam FBtr0080647 F 21 0 1.0 -0.471 +input1.bam FBtr0080647 F 22 1 1.0 2.121 +input1.bam FBtr0080647 F 23 0 1.0 -0.471 +input1.bam FBtr0080647 F 24 0 1.0 -0.471 +input1.bam FBtr0080647 F 25 0 1.0 -0.471 +input1.bam FBtr0080647 F 26 0 1.0 -0.471 +input1.bam FBtr0080647 F 27 0 1.0 -0.471 +input1.bam FBtr0080647 F 28 0 1.0 -0.471 +input1.bam FBtr0080647 F 29 0 1.0 -0.471 +input1.bam FBtr0080660 F 19 0 1.0 -0.442 +input1.bam FBtr0080660 F 20 0 1.0 -0.442 +input1.bam FBtr0080660 F 21 2 1.0 1.18 +input1.bam FBtr0080660 F 22 0 1.0 -0.442 +input1.bam FBtr0080660 F 23 0 1.0 -0.442 +input1.bam FBtr0080660 F 24 4 1.0 2.801 +input1.bam FBtr0080660 F 25 0 1.0 -0.442 +input1.bam FBtr0080660 F 26 0 1.0 -0.442 +input1.bam FBtr0080660 F 27 0 1.0 -0.442 +input1.bam FBtr0080660 F 28 0 1.0 -0.442 +input1.bam FBtr0080660 F 29 0 1.0 -0.442 +input1.bam FBtr0080663 F 19 3 1.0 -0.388 +input1.bam FBtr0080663 F 20 10 1.0 0.378 +input1.bam FBtr0080663 F 21 0 1.0 -0.717 +input1.bam FBtr0080663 F 22 1 1.0 -0.607 +input1.bam FBtr0080663 F 23 7 1.0 0.05 +input1.bam FBtr0080663 F 24 33 1.0 2.898 +input1.bam FBtr0080663 F 25 10 1.0 0.378 +input1.bam FBtr0080663 F 26 6 1.0 -0.06 +input1.bam FBtr0080663 F 27 0 1.0 -0.717 +input1.bam FBtr0080663 F 28 2 1.0 -0.498 +input1.bam FBtr0080663 F 29 0 1.0 -0.717 +input1.bam FBtr0080664 F 19 3 1.0 -0.466 +input1.bam FBtr0080664 F 20 12 1.0 0.515 +input1.bam FBtr0080664 F 21 5 1.0 -0.248 +input1.bam FBtr0080664 F 22 0 1.0 -0.793 +input1.bam FBtr0080664 F 23 11 1.0 0.406 +input1.bam FBtr0080664 F 24 33 1.0 2.804 +input1.bam FBtr0080664 F 25 10 1.0 0.297 +input1.bam FBtr0080664 F 26 4 1.0 -0.357 +input1.bam FBtr0080664 F 27 0 1.0 -0.793 +input1.bam FBtr0080664 F 28 2 1.0 -0.575 +input1.bam FBtr0080664 F 29 0 1.0 -0.793
--- a/test-data/size.tab Thu Apr 25 12:49:05 2019 -0400 +++ b/test-data/size.tab Fri Oct 04 04:33:53 2019 -0400 @@ -1,694 +1,694 @@ # Dataset Chromosome Polarity Size Counts Strandness z-score -input1.bam FBtr0070001 F 19 1 1.0 -0.448696330732 -input1.bam FBtr0070001 F 20 4 1.0 -0.104347983891 -input1.bam FBtr0070001 F 21 4 1.0 -0.104347983891 -input1.bam FBtr0070001 F 22 29 1.0 2.76522157312 -input1.bam FBtr0070001 F 23 15 1.0 1.15826262119 -input1.bam FBtr0070001 F 24 1 1.0 -0.448696330732 -input1.bam FBtr0070001 F 25 0 1.0 -0.563479113013 -input1.bam FBtr0070001 F 26 0 1.0 -0.563479113013 -input1.bam FBtr0070001 F 27 0 1.0 -0.563479113013 -input1.bam FBtr0070001 F 28 0 1.0 -0.563479113013 -input1.bam FBtr0070001 F 29 0 1.0 -0.563479113013 -input1.bam FBtr0070533 F 19 3 1.0 1.27519650491 -input1.bam FBtr0070533 F 20 2 1.0 0.536924844171 -input1.bam FBtr0070533 F 21 2 1.0 0.536924844171 -input1.bam FBtr0070533 F 22 4 1.0 2.01346816564 -input1.bam FBtr0070533 F 23 2 1.0 0.536924844171 -input1.bam FBtr0070533 F 24 0 1.0 -0.9396184773 -input1.bam FBtr0070533 F 25 1 1.0 -0.201346816564 -input1.bam FBtr0070533 F 26 0 1.0 -0.9396184773 -input1.bam FBtr0070533 F 27 0 1.0 -0.9396184773 -input1.bam FBtr0070533 F 28 0 1.0 -0.9396184773 -input1.bam FBtr0070533 F 29 0 1.0 -0.9396184773 -input1.bam FBtr0070603 F 19 1 1.0 -0.874157276122 -input1.bam FBtr0070603 F 20 6 1.0 0.906533471533 -input1.bam FBtr0070603 F 21 3 1.0 -0.16188097706 -input1.bam FBtr0070603 F 22 3 1.0 -0.16188097706 -input1.bam FBtr0070603 F 23 10 1.0 2.33108606966 -input1.bam FBtr0070603 F 24 2 1.0 -0.518019126591 -input1.bam FBtr0070603 F 25 5 1.0 0.550395322002 -input1.bam FBtr0070603 F 26 5 1.0 0.550395322002 -input1.bam FBtr0070603 F 27 3 1.0 -0.16188097706 -input1.bam FBtr0070603 F 28 0 1.0 -1.23029542565 -input1.bam FBtr0070603 F 29 0 1.0 -1.23029542565 -input1.bam FBtr0070604 F 19 2 1.0 -0.185793425342 -input1.bam FBtr0070604 F 20 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 21 1 1.0 -0.331773973825 -input1.bam FBtr0070604 F 22 23 1.0 2.8797980928 -input1.bam FBtr0070604 F 23 10 1.0 0.982050962522 -input1.bam FBtr0070604 F 24 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 25 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 26 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 27 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 28 0 1.0 -0.477754522308 -input1.bam FBtr0070604 F 29 0 1.0 -0.477754522308 -input1.bam FBtr0070911 F 19 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 20 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 21 1 1.0 3.16227766017 -input1.bam FBtr0070911 F 22 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 23 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 24 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 25 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 26 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 27 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 28 0 1.0 -0.316227766017 -input1.bam FBtr0070911 F 29 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 19 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 20 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 21 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 22 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 23 1 1.0 3.16227766017 -input1.bam FBtr0078490 F 24 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 25 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 26 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 27 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 28 0 1.0 -0.316227766017 -input1.bam FBtr0078490 F 29 0 1.0 -0.316227766017 -input1.bam FBtr0078580 F 19 8 1.0 -0.450200695898 -input1.bam FBtr0078580 F 20 9 1.0 -0.436595729813 -input1.bam FBtr0078580 F 21 5 1.0 -0.491015594153 -input1.bam FBtr0078580 F 22 13 1.0 -0.382175865474 -input1.bam FBtr0078580 F 23 5 1.0 -0.491015594153 -input1.bam FBtr0078580 F 24 180 1.0 1.88985347069 -input1.bam FBtr0078580 F 25 212 1.0 2.32521238541 -input1.bam FBtr0078580 F 26 1 1.0 -0.545435458492 -input1.bam FBtr0078580 F 27 2 1.0 -0.531830492407 -input1.bam FBtr0078580 F 28 17 1.0 -0.327756001135 -input1.bam FBtr0078580 F 29 0 1.0 -0.559040424577 -input1.bam FBtr0078790 F 19 2 1.0 1.54713186939 -input1.bam FBtr0078790 F 20 2 1.0 1.54713186939 -input1.bam FBtr0078790 F 21 0 1.0 -0.721994872381 -input1.bam FBtr0078790 F 22 2 1.0 1.54713186939 -input1.bam FBtr0078790 F 23 1 1.0 0.412568498504 -input1.bam FBtr0078790 F 24 0 1.0 -0.721994872381 -input1.bam FBtr0078790 F 25 0 1.0 -0.721994872381 -input1.bam FBtr0078790 F 26 0 1.0 -0.721994872381 -input1.bam FBtr0078790 F 27 0 1.0 -0.721994872381 -input1.bam FBtr0078790 F 28 0 1.0 -0.721994872381 -input1.bam FBtr0078790 F 29 0 1.0 -0.721994872381 -input1.bam FBtr0079064 F 19 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 20 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 21 1 1.0 3.16227766017 -input1.bam FBtr0079064 F 22 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 23 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 24 0 1.0 -0.316227766017 -input1.bam FBtr0079064 F 25 0 1.0 -0.316227766017 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-0.612372435696 -input1.bam FBtr0079090 R 21 1 0.666666666667 1.63299316186 -input1.bam FBtr0079090 R 22 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 23 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 24 0 0.666666666667 1.63299316186 -input1.bam FBtr0079090 R 25 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 26 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 27 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079090 R 28 0 0.666666666667 1.63299316186 -input1.bam FBtr0079090 R 29 0 0.666666666667 -0.612372435696 -input1.bam FBtr0079338 F 19 1 1.0 0.0496291666985 -input1.bam FBtr0079338 F 20 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 21 3 1.0 1.14147083407 -input1.bam FBtr0079338 F 22 6 1.0 2.77923333512 -input1.bam FBtr0079338 F 23 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 24 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 25 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 26 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 27 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 28 0 1.0 -0.496291666985 -input1.bam FBtr0079338 F 29 0 1.0 -0.496291666985 -input1.bam FBtr0079528 F 19 4 1.0 -0.320526584152 -input1.bam FBtr0079528 F 20 12 1.0 0.509071633653 -input1.bam FBtr0079528 F 21 3 1.0 -0.424226361378 -input1.bam FBtr0079528 F 22 2 1.0 -0.527926138604 -input1.bam FBtr0079528 F 23 3 1.0 -0.424226361378 -input1.bam FBtr0079528 F 24 36 1.0 2.99786628707 -input1.bam FBtr0079528 F 25 8 1.0 0.0942725247506 -input1.bam FBtr0079528 F 26 5 1.0 -0.216826806926 -input1.bam FBtr0079528 F 27 2 1.0 -0.527926138604 -input1.bam FBtr0079528 F 28 2 1.0 -0.527926138604 -input1.bam FBtr0079528 F 29 1 1.0 -0.631625915829 -input1.bam FBtr0079596 F 19 10 1.0 0.911805452636 -input1.bam FBtr0079596 F 20 13 1.0 1.44911938008 -input1.bam FBtr0079596 F 21 3 1.0 -0.341927044739 -input1.bam FBtr0079596 F 22 16 1.0 1.98643330753 -input1.bam FBtr0079596 F 23 8 1.0 0.553596167672 -input1.bam FBtr0079596 F 24 0 1.0 -0.879240972185 -input1.bam FBtr0079596 F 25 0 1.0 -0.879240972185 -input1.bam FBtr0079596 F 26 3 1.0 -0.341927044739 -input1.bam FBtr0079596 F 27 1 1.0 -0.700136329703 -input1.bam FBtr0079596 F 28 0 1.0 -0.879240972185 -input1.bam FBtr0079596 F 29 0 1.0 -0.879240972185 -input1.bam FBtr0079677 F 19 2 1.0 2.80139716694 -input1.bam FBtr0079677 F 20 0 1.0 -0.442325868465 -input1.bam FBtr0079677 F 21 0 1.0 -0.442325868465 -input1.bam FBtr0079677 F 22 0 1.0 -0.442325868465 -input1.bam FBtr0079677 F 23 1 1.0 1.17953564924 -input1.bam FBtr0079677 F 24 0 1.0 -0.442325868465 -input1.bam FBtr0079677 F 25 0 1.0 -0.442325868465 -input1.bam FBtr0079677 F 26 0 1.0 -0.442325868465 -input1.bam FBtr0079677 F 27 0 1.0 -0.442325868465 -input1.bam FBtr0079677 F 28 0 1.0 -0.442325868465 -input1.bam FBtr0079677 F 29 0 1.0 -0.442325868465 -input1.bam FBtr0079690 F 19 0 1.0 -0.316227766017 -input1.bam FBtr0079690 F 20 0 1.0 -0.316227766017 -input1.bam FBtr0079690 F 21 0 1.0 -0.316227766017 -input1.bam FBtr0079690 F 22 0 1.0 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