In [9]:
config = {
'data_folder' : 'probes',
'RUN' : 'run_BWA_JKL_23_JU_1_orig',
'chromosome' : 'SL2.40ch12',
'scaffold' : 'SL2.40sc05611',
'out_folder' : 'reports_short'
}
if True:
config['BAC' ] = 'JBPP0904'
config['BAC_coord_start'] = 967164
config['BAC_coord_end' ] = 970727
config['BAC_coord' ] = '%012d-%012d' % ( config['BAC_coord_start'], config['BAC_coord_end' ] )
config['RUN' ] = 'run_BWA_JKL_23_JU_1_orig_PROBES'
In [10]:
%run -i probes_cfg_short.ipynb
In [11]:
%run -i probes_cfg_short_header.ipynb
Singularity Report
Run: run_BWA_JKL_23_JU_1_orig_PROBES
Chromosome: SL2.40ch12
Scaffold: SL2.40sc05611
BAC: JBPP0904
BAC coord start: 967164
BAC coord end: 970727
Config
BAC : JBPP0904
BAC_coord : 000000967164-000000970727
BAC_coord_end : 970727
BAC_coord_start: 967164
RUN : run_BWA_JKL_23_JU_1_orig_PROBES
chromosome : SL2.40ch12
data_folder : probes
out_extensions : ['eps', 'png', 'pdf']
out_folder : reports_short
scaffold : SL2.40sc05611
Max Rows : 10000
Column Names
K-mer Coverage averaged: 50 Kbp
Sequencing Coverage
BLAST Coverage
Ns
AGP Contig
AGP Gap
In [13]:
%run -i probes_cfg_short_images.ipynb
has config global
Populating the interactive namespace from numpy and matplotlib
WARNING: pylab import has clobbered these variables: ['axes', 'f', 'axis', 'title']
`%matplotlib` prevents importing * from pylab and numpy
Files
Input Files
KmerCoverageFile : True probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.sam.SL2.40sc05611.sam.cov.prop.cov.gz
SequencingCoverageFile: True probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_chromosomes.fa_S_lycopersicum_chromosomes.pos.SL2.40ch12.pos.cov.SL2.40sc05611.cov.gz
AgpContigFile : True probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_scaffolds_from_contigs.2.40.agp.SL2.40sc05611.agp.contig.agp.cov.gz
AgpGapFile : True probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_scaffolds_from_contigs.2.40.agp.SL2.40sc05611.agp.gap.agp.cov.gz
AgpOtherFile : True probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_scaffolds_from_contigs.2.40.agp.SL2.40sc05611.agp.other.agp.cov.gz
AgpUnknownFile : True probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_scaffolds_from_contigs.2.40.agp.SL2.40sc05611.agp.unknown.agp.cov.gz
NsFile : True probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_scaffolds.fa_NONE.tab.SL2.40ch12.tab.SL2.40sc05611.tab.cov.gz
BlastCoverageFile : True probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727_Product.fasta.blast.cov.gz
all files present
Output Files
BLAST Coverage Distribution :
- reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.BLAST_Coverage_Distribution.eps
- reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.BLAST_Coverage_Distribution.png
- reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.BLAST_Coverage_Distribution.pdf
BLAST Coverage Stats :
- reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.BLAST_Coverage_Stats.eps
- reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.BLAST_Coverage_Stats.png
- reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.BLAST_Coverage_Stats.pdf
Combined graph :
- reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Combined_graph.eps
- reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Combined_graph.png
- reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Combined_graph.pdf
Gaps Distribution :
- reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Gaps_Distribution.eps
- reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Gaps_Distribution.png
- reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Gaps_Distribution.pdf
K-mer Coverage Distribution :
- reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-mer_Coverage_Distribution.eps
- reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-mer_Coverage_Distribution.png
- reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-mer_Coverage_Distribution.pdf
K-mer Coverage Stats :
- reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-mer_Coverage_Stats.eps
- reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-mer_Coverage_Stats.png
- reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-mer_Coverage_Stats.pdf
Ns Distribution :
- reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Ns_Distribution.eps
- reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Ns_Distribution.png
- reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Ns_Distribution.pdf
Sequencing Coverage Distribution:
- reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Sequencing_Coverage_Distribution.eps
- reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Sequencing_Coverage_Distribution.png
- reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Sequencing_Coverage_Distribution.pdf
Sequencing Coverage Stats :
- reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Sequencing_Coverage_Stats.eps
- reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Sequencing_Coverage_Stats.png
- reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Sequencing_Coverage_Stats.pdf
all_data :
- reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.raw_data.csv
- reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.raw_data.csv
- reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.raw_data.csv
all_data_full :
- reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-raw_data.full.csv
- reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-raw_data.full.csv
- reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-raw_data.full.csv
Read Files
K-mer Coverage File
probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.sam.SL2.40sc05611.sam.cov.prop.cov.gz
Loaded 3564 rows and 9 columns
Sequencing Coverage File
probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_chromosomes.fa_S_lycopersicum_chromosomes.pos.SL2.40ch12.pos.cov.SL2.40sc05611.cov.gz
Loaded 3564 rows and 2 columns
BLAST
probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727_Product.fasta.blast.cov.gz
Loaded 3564 rows and 2 columns
AGP
Contig
probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_scaffolds_from_contigs.2.40.agp.SL2.40sc05611.agp.contig.agp.cov.gz
Loaded 3564 rows and 2 columns
Gap
probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_scaffolds_from_contigs.2.40.agp.SL2.40sc05611.agp.gap.agp.cov.gz
Loaded 3564 rows and 2 columns
Unknown
probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_scaffolds_from_contigs.2.40.agp.SL2.40sc05611.agp.unknown.agp.cov.gz
Loaded 3564 rows and 2 columns
Other
probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_scaffolds_from_contigs.2.40.agp.SL2.40sc05611.agp.other.agp.cov.gz
Loaded 3564 rows and 2 columns
Ns
probes/run_BWA_JKL_23_JU_1_orig_PROBES/S_lycopersicum_chromosomes.fa_S_lycopersicum_scaffolds.sam.SL2.40ch12.SL2.40sc05611.JBPP0904_primer.000000967164-000000970727.S_lycopersicum_scaffolds.fa_NONE.tab.SL2.40ch12.tab.SL2.40sc05611.tab.cov.gz
Loaded 3564 rows and 2 columns
Merge
Saved 3564 rows and 16 columns
Stats
Describe
Position K-mer Coverage K-mer Coverage averaged: 500 bp \
count 3564.000000 3564.000000 3564.000000
mean 1781.500000 0.987118 0.979846
std 1028.982507 0.042654 0.023863
min 0.000000 0.652174 0.868090
25% 890.750000 1.000000 0.976048
50% 1781.500000 1.000000 0.988024
75% 2672.250000 1.000000 0.994012
max 3563.000000 1.000000 0.998004
K-mer Coverage averaged: 2.5 Kbp K-mer Coverage averaged: 5 Kbp \
count 3564.000000 3564.000000
mean 0.972331 0.950346
std 0.015624 0.020099
min 0.921127 0.900498
25% 0.960016 0.937013
50% 0.977739 0.952210
75% 0.987205 0.969478
max 0.990404 0.976005
K-mer Coverage averaged: 50 Kbp K-mer Coverage averaged: 1 Mbp \
count 3564.000000 3564.000000
mean 0.644977 0.759933
std 0.015788 0.000203
min 0.622268 0.759625
25% 0.629966 0.759754
50% 0.645013 0.759918
75% 0.659184 0.760043
max 0.671427 0.760458
K-mer Coverage averaged: 5 Kbp before \
count 3564.000000
mean 0.862887
std 0.052024
min 0.796571
25% 0.808638
50% 0.883462
75% 0.913017
max 0.950810
K-mer Coverage averaged: 5 Kbp after AGP Contig AGP Gap AGP Unknown \
count 3564.000000 3564 3564 3564
mean 0.932908 1 0 0
std 0.018178 0 0 0
min 0.917816 1 0 0
25% 0.921216 1 0 0
50% 0.922416 1 0 0
75% 0.948210 1 0 0
max 0.976005 1 0 0
AGP Other Ns Sequencing Coverage BLAST Coverage
count 3564 3564 3564.000000 3564.000000
mean 0 0 133.513187 1.024270
std 0 0 39.100518 0.162556
min 0 0 56.000000 -1.000000
25% 0 0 102.000000 1.000000
50% 0 0 132.000000 1.000000
75% 0 0 159.000000 1.000000
max 0 0 299.000000 2.000000
Quantiles
0.010 0.782609
0.025 0.869565
0.050 0.913043
0.100 0.956522
0.200 1.000000
0.300 1.000000
0.400 1.000000
0.500 1.000000
0.600 1.000000
0.700 1.000000
0.800 1.000000
0.900 1.000000
0.950 1.000000
0.975 1.000000
0.990 1.000000
dtype: float64
Percentiles
count 3564
count == 1 3033
prop == 1 0.85101010101
Median
Position 1781.500000
K-mer Coverage 1.000000
K-mer Coverage averaged: 500 bp 0.988024
K-mer Coverage averaged: 2.5 Kbp 0.977739
K-mer Coverage averaged: 5 Kbp 0.952210
K-mer Coverage averaged: 50 Kbp 0.645013
K-mer Coverage averaged: 1 Mbp 0.759918
K-mer Coverage averaged: 5 Kbp before 0.883462
K-mer Coverage averaged: 5 Kbp after 0.922416
AGP Contig 1.000000
AGP Gap 0.000000
AGP Unknown 0.000000
AGP Other 0.000000
Ns 0.000000
Sequencing Coverage 132.000000
BLAST Coverage 1.000000
dtype: float64
MAD
Position 891.000000
K-mer Coverage 0.021926
K-mer Coverage averaged: 500 bp 0.014734
K-mer Coverage averaged: 2.5 Kbp 0.013925
K-mer Coverage averaged: 5 Kbp 0.016092
K-mer Coverage averaged: 50 Kbp 0.013832
K-mer Coverage averaged: 1 Mbp 0.000161
K-mer Coverage averaged: 5 Kbp before 0.048236
K-mer Coverage averaged: 5 Kbp after 0.015645
AGP Contig 0.000000
AGP Gap 0.000000
AGP Unknown 0.000000
AGP Other 0.000000
Ns 0.000000
Sequencing Coverage 30.920078
BLAST Coverage 0.050039
dtype: float64
Plot
K-mer Coverage Stats
Saving Image: reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-mer_Coverage_Stats.eps
Saving Image: reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-mer_Coverage_Stats.png
Saving Image: reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-mer_Coverage_Stats.pdf
Sequencing Coverage Stats
Saving Image: reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Sequencing_Coverage_Stats.eps
Saving Image: reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Sequencing_Coverage_Stats.png
Saving Image: reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Sequencing_Coverage_Stats.pdf
BLAST Coverage Stats
Saving Image: reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.BLAST_Coverage_Stats.eps
Saving Image: reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.BLAST_Coverage_Stats.png
Saving Image: reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.BLAST_Coverage_Stats.pdf
K-mer Coverage Distribution
Number of rows: 3564
Saving Image: reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-mer_Coverage_Distribution.eps
Saving Image: reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-mer_Coverage_Distribution.png
Saving Image: reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.K-mer_Coverage_Distribution.pdf
Sequencing Coverage Distribution
Number of rows: 3564
Saving Image: reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Sequencing_Coverage_Distribution.eps
Saving Image: reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Sequencing_Coverage_Distribution.png
Saving Image: reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Sequencing_Coverage_Distribution.pdf
BLAST Coverage Distribution
Number of rows: 3560
Saving Image: reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.BLAST_Coverage_Distribution.eps
Saving Image: reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.BLAST_Coverage_Distribution.png
Saving Image: reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.BLAST_Coverage_Distribution.pdf
Gaps Distribution
Number of rows: 0
Ns Distribution
Number of rows: 0
CSV Output
Original Size 3564 rows and 16 columns
no need to sample
Saving data to : reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.raw_data.csv
Saving data to : reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.raw_data.csv
Saving data to : reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.raw_data.csv
Combined Graph
[['K-mer Coverage averaged: 50 Kbp', [0, 1], 4, {'color': 'orange'}], ['Sequencing Coverage', None, 10, {'color': 'green', 'kind': 'line', 'logy': True}], ['BLAST Coverage', [0, None], 5, {'color': 'blue'}], ['Ns', [0.1, 1], 0, {'color': 'grey'}], ['AGP Contig', [0.1, 1], 0, {'color': 'grey'}], ['AGP Gap', [0.1, 1], 0, {'color': 'grey'}], None, None, None, None, None, None, None, None, None]
Saving Image: reports_short/eps/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Combined_graph.eps
Saving Image: reports_short/png/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Combined_graph.png
Saving Image: reports_short/pdf/run_BWA_JKL_23_JU_1_orig_PROBES_SL2.40ch12_SL2.40sc05611_JBPP0904_000000967164-000000970727.Combined_graph.pdf
%run -i probes_cfg_short_footer.ipynb