# HG changeset patch # User iuc # Date 1725994962 0 # Node ID babbcf02d35c4684e2e256f3d8a956006381ad88 # Parent eee1a2f6abd81ed83642fb8998406f73ad576f45 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/falco commit 900be4eec6ed42fd9addf229406458bb75e3d69b diff -r eee1a2f6abd8 -r babbcf02d35c falco.xml --- a/falco.xml Sun Jun 30 11:28:30 2024 +0000 +++ b/falco.xml Tue Sep 10 19:02:42 2024 +0000 @@ -1,10 +1,14 @@ - + An alternative, more performant implementation of FastQC for high throughput sequence quality control + + 1.2.3 + 0 + falco - falco + falco - + @@ -93,7 +97,6 @@ - - diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_data.txt --- a/test-data/fastqc_data.txt Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_data.txt Tue Sep 10 19:02:42 2024 +0000 @@ -1,4 +1,4 @@ -##Falco 1.2.2 +##Falco 1.2.3 >>Basic Statistics pass #Measure Value Filename 1000trimmed_fastq @@ -1597,114 +1597,114 @@ #Sequence Count Percentage Possible Source ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT 33 0.672783 No Hit >>END_MODULE ->>Adapter Content pass -#Position Illumina Universal Adapter Illumina Small RNA 3 prime Adapter Illumina Small RNA 5 prime Adapter Nextera Transposase Sequence SOLID Small RNA Adapter -1 0 0 0 0 0 -2 0 0 0 0 0 -3 0 0 0 0 0 -4 0 0 0 0 0 -5 0 0 0 0 0 -6 0 0 0 0 0 -7 0 0 0 0 0 -8 0 0 0 0 0 -9 0 0 0 0 0 -10 0 0 0 0 0 -11 0 0 0 0 0 -12 0 0 0 0 0 -13 0 0 0 0 0 -14 0 0 0 0 0 -15 0 0 0 0 0 -16 0 0 0 0 0 -17 0 0 0 0 0 -18 0 0 0 0 0 -19 0 0 0 0 0 -20 0.122324 0 0 0 0 -21 0.122324 0 0 0 0 -22 0.122324 0 0 0 0 -23 0.122324 0 0 0 0 -24 0.122324 0 0 0 0 -25 0.122324 0 0 0 0 -26 0.122324 0 0 0 0 -27 0.142712 0 0 0 0 -28 0.183486 0 0 0 0 -29 0.224261 0 0 0 0 -30 0.224261 0 0 0 0 -31 0.224261 0 0 0 0 -32 0.224261 0 0 0 0 -33 0.224261 0 0 0 0 -34 0.224261 0 0 0 0 -35 0.265036 0 0 0 0 -36 0.285423 0 0 0 0 -37 0.326198 0 0 0 0 -38 0.407747 0 0 0 0 -39 0.468909 0 0 0 0 -40 0.468909 0 0 0 0 -41 0.468909 0 0 0 0 -42 0.468909 0 0 0 0 -43 0.468909 0 0 0 0 -44 0.468909 0 0 0 0 -45 0.468909 0 0 0 0 -46 0.468909 0 0 0 0 -47 0.468909 0 0 0 0 -48 0.468909 0 0 0 0 -49 0.468909 0 0 0 0 -50 0.468909 0 0 0 0 -51 0.468909 0 0 0 0 -52 0.468909 0 0 0 0 -53 0.468909 0 0 0 0 -54 0.468909 0 0 0 0 -55 0.468909 0 0 0 0 -56 0.468909 0 0 0 0 -57 0.468909 0 0 0 0 -58 0.468909 0 0 0 0 -59 0.468909 0 0 0 0 -60 0.468909 0 0 0 0 -61 0.468909 0 0 0 0 -62 0.468909 0 0 0 0 -63 0.468909 0 0 0 0 -64 0.468909 0 0 0 0 -65 0.468909 0 0 0 0 -66 0.468909 0 0 0 0 -67 0.468909 0 0 0 0 -68 0.468909 0 0 0 0 -69 0.468909 0 0 0 0 -70 0.468909 0 0 0 0 -71 0.468909 0 0 0 0 -72 0.468909 0 0 0 0 -73 0.468909 0 0 0 0 -74 0.489297 0 0 0 0 -75 0.489297 0 0 0 0 -76 0.489297 0 0 0 0 -77 0.489297 0 0 0 0 -78 0.489297 0 0 0 0 -79 0.489297 0 0 0 0 -80 0.489297 0 0 0 0 -81 0.489297 0 0 0 0 -82 0.489297 0 0 0 0 -83 0.509684 0 0 0 0 -84 0.509684 0 0 0 0 -85 0.509684 0 0 0 0 -86 0.509684 0 0 0 0 -87 0.509684 0 0 0 0 -88 0.509684 0 0 0 0 -89 0.509684 0 0 0 0 -90 0.509684 0 0 0 0 -91 0.509684 0 0 0 0 -92 0.570846 0 0 0 0 -93 0.632008 0 0 0 0 -94 0.632008 0 0 0 0 -95 0.632008 0 0 0 0 -96 0.632008 0 0 0 0 -97 0.632008 0 0 0 0 -98 0.632008 0 0 0 0 -99 0.632008 0 0 0 0 -100 0.632008 0 0 0 0 -101 0.632008 0 0 0 0 -102 0.632008 0 0 0 0 -103 0.632008 0 0 0 0 -104 0.632008 0 0 0 0 -105 0.632008 0 0 0 0 -106 0.632008 0 0 0 0 -107 0.632008 0 0 0 0 -108 0.632008 0 0 0 0 +>>Adapter Content warn +#Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence PolyA PolyG +1 0 0 0 0 0.0203874 0 +2 0 0 0 0 0.0815494 0 +3 0 0 0 0 0.142712 0 +4 0 0 0 0 0.183486 0 +5 0 0 0 0 0.285423 0 +6 0 0 0 0 0.38736 0 +7 0 0 0 0 0.489297 0 +8 0 0 0 0 0.591233 0 +9 0 0 0 0 0.672783 0 +10 0 0 0 0 0.754332 0 +11 0 0 0 0 0.835882 0 +12 0 0 0 0 0.917431 0 +13 0 0 0 0 1.01937 0 +14 0 0 0 0 1.1213 0 +15 0 0 0 0 1.24363 0 +16 0 0 0 0 1.34557 0 +17 0 0 0 0 1.46789 0 +18 0 0 0 0 1.59021 0 +19 0 0 0 0 1.67176 0 +20 0.122324 0 0 0 1.75331 0 +21 0.122324 0 0 0 1.83486 0 +22 0.122324 0 0 0 1.89602 0 +23 0.122324 0 0 0 1.95719 0 +24 0.122324 0 0 0 2.01835 0 +25 0.122324 0 0 0 2.07951 0 +26 0.122324 0 0 0 2.14067 0 +27 0.142712 0 0 0 2.20183 0 +28 0.183486 0 0 0 2.263 0 +29 0.224261 0 0 0 2.32416 0 +30 0.224261 0 0 0 2.38532 0 +31 0.224261 0 0 0 2.44648 0 +32 0.224261 0 0 0 2.50765 0 +33 0.224261 0 0 0 2.60958 0 +34 0.224261 0 0 0 2.71152 0 +35 0.265036 0 0 0 2.81346 0 +36 0.285423 0 0 0 2.89501 0 +37 0.326198 0 0 0 2.99694 0 +38 0.407747 0 0 0 3.09888 0 +39 0.468909 0 0 0 3.20082 0 +40 0.468909 0 0 0 3.30275 0 +41 0.468909 0 0 0 3.40469 0 +42 0.468909 0 0 0 3.48624 0 +43 0.468909 0 0 0 3.56779 0 +44 0.468909 0 0 0 3.60856 0 +45 0.468909 0 0 0 3.62895 0 +46 0.468909 0 0 0 3.64934 0 +47 0.468909 0 0 0 3.66972 0 +48 0.468909 0 0 0 3.69011 0 +49 0.468909 0 0 0 3.7105 0 +50 0.468909 0 0 0 3.7105 0 +51 0.468909 0 0 0 3.7105 0 +52 0.468909 0 0 0 3.7105 0 +53 0.468909 0 0 0 3.7105 0 +54 0.468909 0 0 0 3.7105 0 +55 0.468909 0 0 0 3.7105 0 +56 0.468909 0 0 0 3.7105 0 +57 0.468909 0 0 0 3.7105 0 +58 0.468909 0 0 0 3.7105 0 +59 0.468909 0 0 0 3.73089 0 +60 0.468909 0 0 0 3.75127 0 +61 0.468909 0 0 0 3.77166 0 +62 0.468909 0 0 0 3.81244 0 +63 0.468909 0 0 0 3.85321 0 +64 0.468909 0 0 0 3.89399 0 +65 0.468909 0 0 0 3.93476 0 +66 0.468909 0 0 0 3.97554 0 +67 0.468909 0 0 0 4.01631 0 +68 0.468909 0 0 0 4.05708 0 +69 0.468909 0 0 0 4.09786 0 +70 0.468909 0 0 0 4.13863 0 +71 0.468909 0 0 0 4.17941 0 +72 0.468909 0 0 0 4.22018 0 +73 0.468909 0 0 0 4.26096 0 +74 0.489297 0 0 0 4.32212 0 +75 0.489297 0 0 0 4.38328 0 +76 0.489297 0 0 0 4.42406 0 +77 0.489297 0 0 0 4.46483 0 +78 0.489297 0 0 0 4.50561 0 +79 0.489297 0 0 0 4.54638 0 +80 0.489297 0 0 0 4.58716 0 +81 0.489297 0 0 0 4.62793 0 +82 0.489297 0 0 0 4.66871 0 +83 0.509684 0 0 0 4.70948 0 +84 0.509684 0 0 0 4.75025 0 +85 0.509684 0 0 0 4.79103 0 +86 0.509684 0 0 0 4.8318 0 +87 0.509684 0 0 0 4.91335 0 +88 0.509684 0 0 0 4.9949 0 +89 0.509684 0 0 0 5.05607 0 +90 0.509684 0 0 0 5.09684 0 +91 0.509684 0 0 0 5.158 0 +92 0.570846 0 0 0 5.21916 0 +93 0.632008 0 0 0 5.28033 0 +94 0.632008 0 0 0 5.34149 0 +95 0.632008 0 0 0 5.40265 0 +96 0.632008 0 0 0 5.46381 0 +97 0.632008 0 0 0 5.52497 0 +98 0.632008 0 0 0 5.52497 0 +99 0.632008 0 0 0 5.52497 0 +100 0.632008 0 0 0 5.52497 0 +101 0.632008 0 0 0 5.52497 0 +102 0.632008 0 0 0 5.52497 0 +103 0.632008 0 0 0 5.52497 0 +104 0.632008 0 0 0 5.52497 0 +105 0.632008 0 0 0 5.52497 0 +106 0.632008 0 0 0 5.52497 0 +107 0.632008 0 0 0 5.52497 0 +108 0.632008 0 0 0 5.52497 0 >>END_MODULE diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_data_adapters.txt --- a/test-data/fastqc_data_adapters.txt Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_data_adapters.txt Tue Sep 10 19:02:42 2024 +0000 @@ -1,4 +1,4 @@ -##Falco 1.2.2 +##Falco 1.2.3 >>Basic Statistics pass #Measure Value Filename 1000trimmed_fastq diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_data_contaminants.txt --- a/test-data/fastqc_data_contaminants.txt Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_data_contaminants.txt Tue Sep 10 19:02:42 2024 +0000 @@ -1,4 +1,4 @@ -##Falco 1.2.2 +##Falco 1.2.3 >>Basic Statistics pass #Measure Value Filename 1000trimmed_fastq @@ -1597,114 +1597,114 @@ #Sequence Count Percentage Possible Source ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT 33 0.672783 No Hit >>END_MODULE ->>Adapter Content pass -#Position Illumina Universal Adapter Illumina Small RNA 3 prime Adapter Illumina Small RNA 5 prime Adapter Nextera Transposase Sequence SOLID Small RNA Adapter -1 0 0 0 0 0 -2 0 0 0 0 0 -3 0 0 0 0 0 -4 0 0 0 0 0 -5 0 0 0 0 0 -6 0 0 0 0 0 -7 0 0 0 0 0 -8 0 0 0 0 0 -9 0 0 0 0 0 -10 0 0 0 0 0 -11 0 0 0 0 0 -12 0 0 0 0 0 -13 0 0 0 0 0 -14 0 0 0 0 0 -15 0 0 0 0 0 -16 0 0 0 0 0 -17 0 0 0 0 0 -18 0 0 0 0 0 -19 0 0 0 0 0 -20 0.122324 0 0 0 0 -21 0.122324 0 0 0 0 -22 0.122324 0 0 0 0 -23 0.122324 0 0 0 0 -24 0.122324 0 0 0 0 -25 0.122324 0 0 0 0 -26 0.122324 0 0 0 0 -27 0.142712 0 0 0 0 -28 0.183486 0 0 0 0 -29 0.224261 0 0 0 0 -30 0.224261 0 0 0 0 -31 0.224261 0 0 0 0 -32 0.224261 0 0 0 0 -33 0.224261 0 0 0 0 -34 0.224261 0 0 0 0 -35 0.265036 0 0 0 0 -36 0.285423 0 0 0 0 -37 0.326198 0 0 0 0 -38 0.407747 0 0 0 0 -39 0.468909 0 0 0 0 -40 0.468909 0 0 0 0 -41 0.468909 0 0 0 0 -42 0.468909 0 0 0 0 -43 0.468909 0 0 0 0 -44 0.468909 0 0 0 0 -45 0.468909 0 0 0 0 -46 0.468909 0 0 0 0 -47 0.468909 0 0 0 0 -48 0.468909 0 0 0 0 -49 0.468909 0 0 0 0 -50 0.468909 0 0 0 0 -51 0.468909 0 0 0 0 -52 0.468909 0 0 0 0 -53 0.468909 0 0 0 0 -54 0.468909 0 0 0 0 -55 0.468909 0 0 0 0 -56 0.468909 0 0 0 0 -57 0.468909 0 0 0 0 -58 0.468909 0 0 0 0 -59 0.468909 0 0 0 0 -60 0.468909 0 0 0 0 -61 0.468909 0 0 0 0 -62 0.468909 0 0 0 0 -63 0.468909 0 0 0 0 -64 0.468909 0 0 0 0 -65 0.468909 0 0 0 0 -66 0.468909 0 0 0 0 -67 0.468909 0 0 0 0 -68 0.468909 0 0 0 0 -69 0.468909 0 0 0 0 -70 0.468909 0 0 0 0 -71 0.468909 0 0 0 0 -72 0.468909 0 0 0 0 -73 0.468909 0 0 0 0 -74 0.489297 0 0 0 0 -75 0.489297 0 0 0 0 -76 0.489297 0 0 0 0 -77 0.489297 0 0 0 0 -78 0.489297 0 0 0 0 -79 0.489297 0 0 0 0 -80 0.489297 0 0 0 0 -81 0.489297 0 0 0 0 -82 0.489297 0 0 0 0 -83 0.509684 0 0 0 0 -84 0.509684 0 0 0 0 -85 0.509684 0 0 0 0 -86 0.509684 0 0 0 0 -87 0.509684 0 0 0 0 -88 0.509684 0 0 0 0 -89 0.509684 0 0 0 0 -90 0.509684 0 0 0 0 -91 0.509684 0 0 0 0 -92 0.570846 0 0 0 0 -93 0.632008 0 0 0 0 -94 0.632008 0 0 0 0 -95 0.632008 0 0 0 0 -96 0.632008 0 0 0 0 -97 0.632008 0 0 0 0 -98 0.632008 0 0 0 0 -99 0.632008 0 0 0 0 -100 0.632008 0 0 0 0 -101 0.632008 0 0 0 0 -102 0.632008 0 0 0 0 -103 0.632008 0 0 0 0 -104 0.632008 0 0 0 0 -105 0.632008 0 0 0 0 -106 0.632008 0 0 0 0 -107 0.632008 0 0 0 0 -108 0.632008 0 0 0 0 +>>Adapter Content warn +#Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence PolyA PolyG +1 0 0 0 0 0.0203874 0 +2 0 0 0 0 0.0815494 0 +3 0 0 0 0 0.142712 0 +4 0 0 0 0 0.183486 0 +5 0 0 0 0 0.285423 0 +6 0 0 0 0 0.38736 0 +7 0 0 0 0 0.489297 0 +8 0 0 0 0 0.591233 0 +9 0 0 0 0 0.672783 0 +10 0 0 0 0 0.754332 0 +11 0 0 0 0 0.835882 0 +12 0 0 0 0 0.917431 0 +13 0 0 0 0 1.01937 0 +14 0 0 0 0 1.1213 0 +15 0 0 0 0 1.24363 0 +16 0 0 0 0 1.34557 0 +17 0 0 0 0 1.46789 0 +18 0 0 0 0 1.59021 0 +19 0 0 0 0 1.67176 0 +20 0.122324 0 0 0 1.75331 0 +21 0.122324 0 0 0 1.83486 0 +22 0.122324 0 0 0 1.89602 0 +23 0.122324 0 0 0 1.95719 0 +24 0.122324 0 0 0 2.01835 0 +25 0.122324 0 0 0 2.07951 0 +26 0.122324 0 0 0 2.14067 0 +27 0.142712 0 0 0 2.20183 0 +28 0.183486 0 0 0 2.263 0 +29 0.224261 0 0 0 2.32416 0 +30 0.224261 0 0 0 2.38532 0 +31 0.224261 0 0 0 2.44648 0 +32 0.224261 0 0 0 2.50765 0 +33 0.224261 0 0 0 2.60958 0 +34 0.224261 0 0 0 2.71152 0 +35 0.265036 0 0 0 2.81346 0 +36 0.285423 0 0 0 2.89501 0 +37 0.326198 0 0 0 2.99694 0 +38 0.407747 0 0 0 3.09888 0 +39 0.468909 0 0 0 3.20082 0 +40 0.468909 0 0 0 3.30275 0 +41 0.468909 0 0 0 3.40469 0 +42 0.468909 0 0 0 3.48624 0 +43 0.468909 0 0 0 3.56779 0 +44 0.468909 0 0 0 3.60856 0 +45 0.468909 0 0 0 3.62895 0 +46 0.468909 0 0 0 3.64934 0 +47 0.468909 0 0 0 3.66972 0 +48 0.468909 0 0 0 3.69011 0 +49 0.468909 0 0 0 3.7105 0 +50 0.468909 0 0 0 3.7105 0 +51 0.468909 0 0 0 3.7105 0 +52 0.468909 0 0 0 3.7105 0 +53 0.468909 0 0 0 3.7105 0 +54 0.468909 0 0 0 3.7105 0 +55 0.468909 0 0 0 3.7105 0 +56 0.468909 0 0 0 3.7105 0 +57 0.468909 0 0 0 3.7105 0 +58 0.468909 0 0 0 3.7105 0 +59 0.468909 0 0 0 3.73089 0 +60 0.468909 0 0 0 3.75127 0 +61 0.468909 0 0 0 3.77166 0 +62 0.468909 0 0 0 3.81244 0 +63 0.468909 0 0 0 3.85321 0 +64 0.468909 0 0 0 3.89399 0 +65 0.468909 0 0 0 3.93476 0 +66 0.468909 0 0 0 3.97554 0 +67 0.468909 0 0 0 4.01631 0 +68 0.468909 0 0 0 4.05708 0 +69 0.468909 0 0 0 4.09786 0 +70 0.468909 0 0 0 4.13863 0 +71 0.468909 0 0 0 4.17941 0 +72 0.468909 0 0 0 4.22018 0 +73 0.468909 0 0 0 4.26096 0 +74 0.489297 0 0 0 4.32212 0 +75 0.489297 0 0 0 4.38328 0 +76 0.489297 0 0 0 4.42406 0 +77 0.489297 0 0 0 4.46483 0 +78 0.489297 0 0 0 4.50561 0 +79 0.489297 0 0 0 4.54638 0 +80 0.489297 0 0 0 4.58716 0 +81 0.489297 0 0 0 4.62793 0 +82 0.489297 0 0 0 4.66871 0 +83 0.509684 0 0 0 4.70948 0 +84 0.509684 0 0 0 4.75025 0 +85 0.509684 0 0 0 4.79103 0 +86 0.509684 0 0 0 4.8318 0 +87 0.509684 0 0 0 4.91335 0 +88 0.509684 0 0 0 4.9949 0 +89 0.509684 0 0 0 5.05607 0 +90 0.509684 0 0 0 5.09684 0 +91 0.509684 0 0 0 5.158 0 +92 0.570846 0 0 0 5.21916 0 +93 0.632008 0 0 0 5.28033 0 +94 0.632008 0 0 0 5.34149 0 +95 0.632008 0 0 0 5.40265 0 +96 0.632008 0 0 0 5.46381 0 +97 0.632008 0 0 0 5.52497 0 +98 0.632008 0 0 0 5.52497 0 +99 0.632008 0 0 0 5.52497 0 +100 0.632008 0 0 0 5.52497 0 +101 0.632008 0 0 0 5.52497 0 +102 0.632008 0 0 0 5.52497 0 +103 0.632008 0 0 0 5.52497 0 +104 0.632008 0 0 0 5.52497 0 +105 0.632008 0 0 0 5.52497 0 +106 0.632008 0 0 0 5.52497 0 +107 0.632008 0 0 0 5.52497 0 +108 0.632008 0 0 0 5.52497 0 >>END_MODULE diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_data_customlimits.txt --- a/test-data/fastqc_data_customlimits.txt Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_data_customlimits.txt Tue Sep 10 19:02:42 2024 +0000 @@ -1,4 +1,4 @@ -##Falco 1.2.2 +##Falco 1.2.3 >>Basic Statistics pass #Measure Value Filename 1000trimmed_fastq @@ -1597,114 +1597,114 @@ #Sequence Count Percentage Possible Source ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT 33 0.672783 No Hit >>END_MODULE ->>Adapter Content pass -#Position Illumina Universal Adapter Illumina Small RNA 3 prime Adapter Illumina Small RNA 5 prime Adapter Nextera Transposase Sequence SOLID Small RNA Adapter -1 0 0 0 0 0 -2 0 0 0 0 0 -3 0 0 0 0 0 -4 0 0 0 0 0 -5 0 0 0 0 0 -6 0 0 0 0 0 -7 0 0 0 0 0 -8 0 0 0 0 0 -9 0 0 0 0 0 -10 0 0 0 0 0 -11 0 0 0 0 0 -12 0 0 0 0 0 -13 0 0 0 0 0 -14 0 0 0 0 0 -15 0 0 0 0 0 -16 0 0 0 0 0 -17 0 0 0 0 0 -18 0 0 0 0 0 -19 0 0 0 0 0 -20 0.122324 0 0 0 0 -21 0.122324 0 0 0 0 -22 0.122324 0 0 0 0 -23 0.122324 0 0 0 0 -24 0.122324 0 0 0 0 -25 0.122324 0 0 0 0 -26 0.122324 0 0 0 0 -27 0.142712 0 0 0 0 -28 0.183486 0 0 0 0 -29 0.224261 0 0 0 0 -30 0.224261 0 0 0 0 -31 0.224261 0 0 0 0 -32 0.224261 0 0 0 0 -33 0.224261 0 0 0 0 -34 0.224261 0 0 0 0 -35 0.265036 0 0 0 0 -36 0.285423 0 0 0 0 -37 0.326198 0 0 0 0 -38 0.407747 0 0 0 0 -39 0.468909 0 0 0 0 -40 0.468909 0 0 0 0 -41 0.468909 0 0 0 0 -42 0.468909 0 0 0 0 -43 0.468909 0 0 0 0 -44 0.468909 0 0 0 0 -45 0.468909 0 0 0 0 -46 0.468909 0 0 0 0 -47 0.468909 0 0 0 0 -48 0.468909 0 0 0 0 -49 0.468909 0 0 0 0 -50 0.468909 0 0 0 0 -51 0.468909 0 0 0 0 -52 0.468909 0 0 0 0 -53 0.468909 0 0 0 0 -54 0.468909 0 0 0 0 -55 0.468909 0 0 0 0 -56 0.468909 0 0 0 0 -57 0.468909 0 0 0 0 -58 0.468909 0 0 0 0 -59 0.468909 0 0 0 0 -60 0.468909 0 0 0 0 -61 0.468909 0 0 0 0 -62 0.468909 0 0 0 0 -63 0.468909 0 0 0 0 -64 0.468909 0 0 0 0 -65 0.468909 0 0 0 0 -66 0.468909 0 0 0 0 -67 0.468909 0 0 0 0 -68 0.468909 0 0 0 0 -69 0.468909 0 0 0 0 -70 0.468909 0 0 0 0 -71 0.468909 0 0 0 0 -72 0.468909 0 0 0 0 -73 0.468909 0 0 0 0 -74 0.489297 0 0 0 0 -75 0.489297 0 0 0 0 -76 0.489297 0 0 0 0 -77 0.489297 0 0 0 0 -78 0.489297 0 0 0 0 -79 0.489297 0 0 0 0 -80 0.489297 0 0 0 0 -81 0.489297 0 0 0 0 -82 0.489297 0 0 0 0 -83 0.509684 0 0 0 0 -84 0.509684 0 0 0 0 -85 0.509684 0 0 0 0 -86 0.509684 0 0 0 0 -87 0.509684 0 0 0 0 -88 0.509684 0 0 0 0 -89 0.509684 0 0 0 0 -90 0.509684 0 0 0 0 -91 0.509684 0 0 0 0 -92 0.570846 0 0 0 0 -93 0.632008 0 0 0 0 -94 0.632008 0 0 0 0 -95 0.632008 0 0 0 0 -96 0.632008 0 0 0 0 -97 0.632008 0 0 0 0 -98 0.632008 0 0 0 0 -99 0.632008 0 0 0 0 -100 0.632008 0 0 0 0 -101 0.632008 0 0 0 0 -102 0.632008 0 0 0 0 -103 0.632008 0 0 0 0 -104 0.632008 0 0 0 0 -105 0.632008 0 0 0 0 -106 0.632008 0 0 0 0 -107 0.632008 0 0 0 0 -108 0.632008 0 0 0 0 +>>Adapter Content warn +#Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence PolyA PolyG +1 0 0 0 0 0.0203874 0 +2 0 0 0 0 0.0815494 0 +3 0 0 0 0 0.142712 0 +4 0 0 0 0 0.183486 0 +5 0 0 0 0 0.285423 0 +6 0 0 0 0 0.38736 0 +7 0 0 0 0 0.489297 0 +8 0 0 0 0 0.591233 0 +9 0 0 0 0 0.672783 0 +10 0 0 0 0 0.754332 0 +11 0 0 0 0 0.835882 0 +12 0 0 0 0 0.917431 0 +13 0 0 0 0 1.01937 0 +14 0 0 0 0 1.1213 0 +15 0 0 0 0 1.24363 0 +16 0 0 0 0 1.34557 0 +17 0 0 0 0 1.46789 0 +18 0 0 0 0 1.59021 0 +19 0 0 0 0 1.67176 0 +20 0.122324 0 0 0 1.75331 0 +21 0.122324 0 0 0 1.83486 0 +22 0.122324 0 0 0 1.89602 0 +23 0.122324 0 0 0 1.95719 0 +24 0.122324 0 0 0 2.01835 0 +25 0.122324 0 0 0 2.07951 0 +26 0.122324 0 0 0 2.14067 0 +27 0.142712 0 0 0 2.20183 0 +28 0.183486 0 0 0 2.263 0 +29 0.224261 0 0 0 2.32416 0 +30 0.224261 0 0 0 2.38532 0 +31 0.224261 0 0 0 2.44648 0 +32 0.224261 0 0 0 2.50765 0 +33 0.224261 0 0 0 2.60958 0 +34 0.224261 0 0 0 2.71152 0 +35 0.265036 0 0 0 2.81346 0 +36 0.285423 0 0 0 2.89501 0 +37 0.326198 0 0 0 2.99694 0 +38 0.407747 0 0 0 3.09888 0 +39 0.468909 0 0 0 3.20082 0 +40 0.468909 0 0 0 3.30275 0 +41 0.468909 0 0 0 3.40469 0 +42 0.468909 0 0 0 3.48624 0 +43 0.468909 0 0 0 3.56779 0 +44 0.468909 0 0 0 3.60856 0 +45 0.468909 0 0 0 3.62895 0 +46 0.468909 0 0 0 3.64934 0 +47 0.468909 0 0 0 3.66972 0 +48 0.468909 0 0 0 3.69011 0 +49 0.468909 0 0 0 3.7105 0 +50 0.468909 0 0 0 3.7105 0 +51 0.468909 0 0 0 3.7105 0 +52 0.468909 0 0 0 3.7105 0 +53 0.468909 0 0 0 3.7105 0 +54 0.468909 0 0 0 3.7105 0 +55 0.468909 0 0 0 3.7105 0 +56 0.468909 0 0 0 3.7105 0 +57 0.468909 0 0 0 3.7105 0 +58 0.468909 0 0 0 3.7105 0 +59 0.468909 0 0 0 3.73089 0 +60 0.468909 0 0 0 3.75127 0 +61 0.468909 0 0 0 3.77166 0 +62 0.468909 0 0 0 3.81244 0 +63 0.468909 0 0 0 3.85321 0 +64 0.468909 0 0 0 3.89399 0 +65 0.468909 0 0 0 3.93476 0 +66 0.468909 0 0 0 3.97554 0 +67 0.468909 0 0 0 4.01631 0 +68 0.468909 0 0 0 4.05708 0 +69 0.468909 0 0 0 4.09786 0 +70 0.468909 0 0 0 4.13863 0 +71 0.468909 0 0 0 4.17941 0 +72 0.468909 0 0 0 4.22018 0 +73 0.468909 0 0 0 4.26096 0 +74 0.489297 0 0 0 4.32212 0 +75 0.489297 0 0 0 4.38328 0 +76 0.489297 0 0 0 4.42406 0 +77 0.489297 0 0 0 4.46483 0 +78 0.489297 0 0 0 4.50561 0 +79 0.489297 0 0 0 4.54638 0 +80 0.489297 0 0 0 4.58716 0 +81 0.489297 0 0 0 4.62793 0 +82 0.489297 0 0 0 4.66871 0 +83 0.509684 0 0 0 4.70948 0 +84 0.509684 0 0 0 4.75025 0 +85 0.509684 0 0 0 4.79103 0 +86 0.509684 0 0 0 4.8318 0 +87 0.509684 0 0 0 4.91335 0 +88 0.509684 0 0 0 4.9949 0 +89 0.509684 0 0 0 5.05607 0 +90 0.509684 0 0 0 5.09684 0 +91 0.509684 0 0 0 5.158 0 +92 0.570846 0 0 0 5.21916 0 +93 0.632008 0 0 0 5.28033 0 +94 0.632008 0 0 0 5.34149 0 +95 0.632008 0 0 0 5.40265 0 +96 0.632008 0 0 0 5.46381 0 +97 0.632008 0 0 0 5.52497 0 +98 0.632008 0 0 0 5.52497 0 +99 0.632008 0 0 0 5.52497 0 +100 0.632008 0 0 0 5.52497 0 +101 0.632008 0 0 0 5.52497 0 +102 0.632008 0 0 0 5.52497 0 +103 0.632008 0 0 0 5.52497 0 +104 0.632008 0 0 0 5.52497 0 +105 0.632008 0 0 0 5.52497 0 +106 0.632008 0 0 0 5.52497 0 +107 0.632008 0 0 0 5.52497 0 +108 0.632008 0 0 0 5.52497 0 >>END_MODULE diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_data_nogroup.txt --- a/test-data/fastqc_data_nogroup.txt Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_data_nogroup.txt Tue Sep 10 19:02:42 2024 +0000 @@ -1,4 +1,4 @@ -##Falco 1.2.2 +##Falco 1.2.3 >>Basic Statistics pass #Measure Value Filename 1000trimmed_fastq @@ -1744,114 +1744,114 @@ #Sequence Count Percentage Possible Source ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT 33 0.672783 No Hit >>END_MODULE ->>Adapter Content pass -#Position Illumina Universal Adapter Illumina Small RNA 3 prime Adapter Illumina Small RNA 5 prime Adapter Nextera Transposase Sequence SOLID Small RNA Adapter -1 0 0 0 0 0 -2 0 0 0 0 0 -3 0 0 0 0 0 -4 0 0 0 0 0 -5 0 0 0 0 0 -6 0 0 0 0 0 -7 0 0 0 0 0 -8 0 0 0 0 0 -9 0 0 0 0 0 -10 0 0 0 0 0 -11 0 0 0 0 0 -12 0 0 0 0 0 -13 0 0 0 0 0 -14 0 0 0 0 0 -15 0 0 0 0 0 -16 0 0 0 0 0 -17 0 0 0 0 0 -18 0 0 0 0 0 -19 0 0 0 0 0 -20 0.122324 0 0 0 0 -21 0.122324 0 0 0 0 -22 0.122324 0 0 0 0 -23 0.122324 0 0 0 0 -24 0.122324 0 0 0 0 -25 0.122324 0 0 0 0 -26 0.122324 0 0 0 0 -27 0.142712 0 0 0 0 -28 0.183486 0 0 0 0 -29 0.224261 0 0 0 0 -30 0.224261 0 0 0 0 -31 0.224261 0 0 0 0 -32 0.224261 0 0 0 0 -33 0.224261 0 0 0 0 -34 0.224261 0 0 0 0 -35 0.265036 0 0 0 0 -36 0.285423 0 0 0 0 -37 0.326198 0 0 0 0 -38 0.407747 0 0 0 0 -39 0.468909 0 0 0 0 -40 0.468909 0 0 0 0 -41 0.468909 0 0 0 0 -42 0.468909 0 0 0 0 -43 0.468909 0 0 0 0 -44 0.468909 0 0 0 0 -45 0.468909 0 0 0 0 -46 0.468909 0 0 0 0 -47 0.468909 0 0 0 0 -48 0.468909 0 0 0 0 -49 0.468909 0 0 0 0 -50 0.468909 0 0 0 0 -51 0.468909 0 0 0 0 -52 0.468909 0 0 0 0 -53 0.468909 0 0 0 0 -54 0.468909 0 0 0 0 -55 0.468909 0 0 0 0 -56 0.468909 0 0 0 0 -57 0.468909 0 0 0 0 -58 0.468909 0 0 0 0 -59 0.468909 0 0 0 0 -60 0.468909 0 0 0 0 -61 0.468909 0 0 0 0 -62 0.468909 0 0 0 0 -63 0.468909 0 0 0 0 -64 0.468909 0 0 0 0 -65 0.468909 0 0 0 0 -66 0.468909 0 0 0 0 -67 0.468909 0 0 0 0 -68 0.468909 0 0 0 0 -69 0.468909 0 0 0 0 -70 0.468909 0 0 0 0 -71 0.468909 0 0 0 0 -72 0.468909 0 0 0 0 -73 0.468909 0 0 0 0 -74 0.489297 0 0 0 0 -75 0.489297 0 0 0 0 -76 0.489297 0 0 0 0 -77 0.489297 0 0 0 0 -78 0.489297 0 0 0 0 -79 0.489297 0 0 0 0 -80 0.489297 0 0 0 0 -81 0.489297 0 0 0 0 -82 0.489297 0 0 0 0 -83 0.509684 0 0 0 0 -84 0.509684 0 0 0 0 -85 0.509684 0 0 0 0 -86 0.509684 0 0 0 0 -87 0.509684 0 0 0 0 -88 0.509684 0 0 0 0 -89 0.509684 0 0 0 0 -90 0.509684 0 0 0 0 -91 0.509684 0 0 0 0 -92 0.570846 0 0 0 0 -93 0.632008 0 0 0 0 -94 0.632008 0 0 0 0 -95 0.632008 0 0 0 0 -96 0.632008 0 0 0 0 -97 0.632008 0 0 0 0 -98 0.632008 0 0 0 0 -99 0.632008 0 0 0 0 -100 0.632008 0 0 0 0 -101 0.632008 0 0 0 0 -102 0.632008 0 0 0 0 -103 0.632008 0 0 0 0 -104 0.632008 0 0 0 0 -105 0.632008 0 0 0 0 -106 0.632008 0 0 0 0 -107 0.632008 0 0 0 0 -108 0.632008 0 0 0 0 +>>Adapter Content warn +#Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence PolyA PolyG +1 0 0 0 0 0.0203874 0 +2 0 0 0 0 0.0815494 0 +3 0 0 0 0 0.142712 0 +4 0 0 0 0 0.183486 0 +5 0 0 0 0 0.285423 0 +6 0 0 0 0 0.38736 0 +7 0 0 0 0 0.489297 0 +8 0 0 0 0 0.591233 0 +9 0 0 0 0 0.672783 0 +10 0 0 0 0 0.754332 0 +11 0 0 0 0 0.835882 0 +12 0 0 0 0 0.917431 0 +13 0 0 0 0 1.01937 0 +14 0 0 0 0 1.1213 0 +15 0 0 0 0 1.24363 0 +16 0 0 0 0 1.34557 0 +17 0 0 0 0 1.46789 0 +18 0 0 0 0 1.59021 0 +19 0 0 0 0 1.67176 0 +20 0.122324 0 0 0 1.75331 0 +21 0.122324 0 0 0 1.83486 0 +22 0.122324 0 0 0 1.89602 0 +23 0.122324 0 0 0 1.95719 0 +24 0.122324 0 0 0 2.01835 0 +25 0.122324 0 0 0 2.07951 0 +26 0.122324 0 0 0 2.14067 0 +27 0.142712 0 0 0 2.20183 0 +28 0.183486 0 0 0 2.263 0 +29 0.224261 0 0 0 2.32416 0 +30 0.224261 0 0 0 2.38532 0 +31 0.224261 0 0 0 2.44648 0 +32 0.224261 0 0 0 2.50765 0 +33 0.224261 0 0 0 2.60958 0 +34 0.224261 0 0 0 2.71152 0 +35 0.265036 0 0 0 2.81346 0 +36 0.285423 0 0 0 2.89501 0 +37 0.326198 0 0 0 2.99694 0 +38 0.407747 0 0 0 3.09888 0 +39 0.468909 0 0 0 3.20082 0 +40 0.468909 0 0 0 3.30275 0 +41 0.468909 0 0 0 3.40469 0 +42 0.468909 0 0 0 3.48624 0 +43 0.468909 0 0 0 3.56779 0 +44 0.468909 0 0 0 3.60856 0 +45 0.468909 0 0 0 3.62895 0 +46 0.468909 0 0 0 3.64934 0 +47 0.468909 0 0 0 3.66972 0 +48 0.468909 0 0 0 3.69011 0 +49 0.468909 0 0 0 3.7105 0 +50 0.468909 0 0 0 3.7105 0 +51 0.468909 0 0 0 3.7105 0 +52 0.468909 0 0 0 3.7105 0 +53 0.468909 0 0 0 3.7105 0 +54 0.468909 0 0 0 3.7105 0 +55 0.468909 0 0 0 3.7105 0 +56 0.468909 0 0 0 3.7105 0 +57 0.468909 0 0 0 3.7105 0 +58 0.468909 0 0 0 3.7105 0 +59 0.468909 0 0 0 3.73089 0 +60 0.468909 0 0 0 3.75127 0 +61 0.468909 0 0 0 3.77166 0 +62 0.468909 0 0 0 3.81244 0 +63 0.468909 0 0 0 3.85321 0 +64 0.468909 0 0 0 3.89399 0 +65 0.468909 0 0 0 3.93476 0 +66 0.468909 0 0 0 3.97554 0 +67 0.468909 0 0 0 4.01631 0 +68 0.468909 0 0 0 4.05708 0 +69 0.468909 0 0 0 4.09786 0 +70 0.468909 0 0 0 4.13863 0 +71 0.468909 0 0 0 4.17941 0 +72 0.468909 0 0 0 4.22018 0 +73 0.468909 0 0 0 4.26096 0 +74 0.489297 0 0 0 4.32212 0 +75 0.489297 0 0 0 4.38328 0 +76 0.489297 0 0 0 4.42406 0 +77 0.489297 0 0 0 4.46483 0 +78 0.489297 0 0 0 4.50561 0 +79 0.489297 0 0 0 4.54638 0 +80 0.489297 0 0 0 4.58716 0 +81 0.489297 0 0 0 4.62793 0 +82 0.489297 0 0 0 4.66871 0 +83 0.509684 0 0 0 4.70948 0 +84 0.509684 0 0 0 4.75025 0 +85 0.509684 0 0 0 4.79103 0 +86 0.509684 0 0 0 4.8318 0 +87 0.509684 0 0 0 4.91335 0 +88 0.509684 0 0 0 4.9949 0 +89 0.509684 0 0 0 5.05607 0 +90 0.509684 0 0 0 5.09684 0 +91 0.509684 0 0 0 5.158 0 +92 0.570846 0 0 0 5.21916 0 +93 0.632008 0 0 0 5.28033 0 +94 0.632008 0 0 0 5.34149 0 +95 0.632008 0 0 0 5.40265 0 +96 0.632008 0 0 0 5.46381 0 +97 0.632008 0 0 0 5.52497 0 +98 0.632008 0 0 0 5.52497 0 +99 0.632008 0 0 0 5.52497 0 +100 0.632008 0 0 0 5.52497 0 +101 0.632008 0 0 0 5.52497 0 +102 0.632008 0 0 0 5.52497 0 +103 0.632008 0 0 0 5.52497 0 +104 0.632008 0 0 0 5.52497 0 +105 0.632008 0 0 0 5.52497 0 +106 0.632008 0 0 0 5.52497 0 +107 0.632008 0 0 0 5.52497 0 +108 0.632008 0 0 0 5.52497 0 >>END_MODULE diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_data_nogroup_summary.txt --- a/test-data/fastqc_data_nogroup_summary.txt Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_data_nogroup_summary.txt Tue Sep 10 19:02:42 2024 +0000 @@ -8,4 +8,4 @@ WARN Sequence Length Distribution 1000trimmed_fastq PASS Sequence Duplication Levels 1000trimmed_fastq WARN Overrepresented sequences 1000trimmed_fastq -PASS Adapter Content 1000trimmed_fastq +WARN Adapter Content 1000trimmed_fastq diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report.html --- a/test-data/fastqc_report.html Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report.html Tue Sep 10 19:02:42 2024 +0000 @@ -1,2 +1,2 @@ - 1000trimmed_fastq - report
Report
Mon May 27 16:50:45 2024 -
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : pass

Falco 1.2.2
\ No newline at end of file + 1000trimmed_fastq - report
Report
Sun Sep 1 15:39:03 2024 +
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : warn

Falco 1.2.3
\ No newline at end of file diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report_adapters.html --- a/test-data/fastqc_report_adapters.html Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report_adapters.html Tue Sep 10 19:02:42 2024 +0000 @@ -1,2 +1,2 @@ - 1000trimmed_fastq - report
Report
Mon May 27 16:55:06 2024 -
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : pass

Falco 1.2.2
\ No newline at end of file + 1000trimmed_fastq - report
Report
Sun Sep 1 15:39:42 2024 +
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : pass

Falco 1.2.3
\ No newline at end of file diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report_bisulfite.html --- a/test-data/fastqc_report_bisulfite.html Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report_bisulfite.html Tue Sep 10 19:02:42 2024 +0000 @@ -1,2 +1,2 @@ - 1000trimmed_fastq - report
Report
Mon May 27 17:08:30 2024 -
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : warn

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : pass

Falco 1.2.2
\ No newline at end of file + 1000trimmed_fastq - report
Report
Sun Sep 1 15:40:53 2024 +
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : warn

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : warn

Falco 1.2.3
\ No newline at end of file diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report_bisulfite.txt --- a/test-data/fastqc_report_bisulfite.txt Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report_bisulfite.txt Tue Sep 10 19:02:42 2024 +0000 @@ -1,4 +1,4 @@ -##Falco 1.2.2 +##Falco 1.2.3 >>Basic Statistics pass #Measure Value Filename 1000trimmed_fastq @@ -1597,114 +1597,114 @@ #Sequence Count Percentage Possible Source ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT 33 0.672783 No Hit >>END_MODULE ->>Adapter Content pass -#Position Illumina Universal Adapter Illumina Small RNA 3 prime Adapter Illumina Small RNA 5 prime Adapter Nextera Transposase Sequence SOLID Small RNA Adapter -1 0 0 0 0 0 -2 0 0 0 0 0 -3 0 0 0 0 0 -4 0 0 0 0 0 -5 0 0 0 0 0 -6 0 0 0 0 0 -7 0 0 0 0 0 -8 0 0 0 0 0 -9 0 0 0 0 0 -10 0 0 0 0 0 -11 0 0 0 0 0 -12 0 0 0 0 0 -13 0 0 0 0 0 -14 0 0 0 0 0 -15 0 0 0 0 0 -16 0 0 0 0 0 -17 0 0 0 0 0 -18 0 0 0 0 0 -19 0 0 0 0 0 -20 0.122324 0 0 0 0 -21 0.122324 0 0 0 0 -22 0.122324 0 0 0 0 -23 0.122324 0 0 0 0 -24 0.122324 0 0 0 0 -25 0.122324 0 0 0 0 -26 0.122324 0 0 0 0 -27 0.142712 0 0 0 0 -28 0.183486 0 0 0 0 -29 0.224261 0 0 0 0 -30 0.224261 0 0 0 0 -31 0.224261 0 0 0 0 -32 0.224261 0 0 0 0 -33 0.224261 0 0 0 0 -34 0.224261 0 0 0 0 -35 0.265036 0 0 0 0 -36 0.285423 0 0 0 0 -37 0.326198 0 0 0 0 -38 0.407747 0 0 0 0 -39 0.468909 0 0 0 0 -40 0.468909 0 0 0 0 -41 0.468909 0 0 0 0 -42 0.468909 0 0 0 0 -43 0.468909 0 0 0 0 -44 0.468909 0 0 0 0 -45 0.468909 0 0 0 0 -46 0.468909 0 0 0 0 -47 0.468909 0 0 0 0 -48 0.468909 0 0 0 0 -49 0.468909 0 0 0 0 -50 0.468909 0 0 0 0 -51 0.468909 0 0 0 0 -52 0.468909 0 0 0 0 -53 0.468909 0 0 0 0 -54 0.468909 0 0 0 0 -55 0.468909 0 0 0 0 -56 0.468909 0 0 0 0 -57 0.468909 0 0 0 0 -58 0.468909 0 0 0 0 -59 0.468909 0 0 0 0 -60 0.468909 0 0 0 0 -61 0.468909 0 0 0 0 -62 0.468909 0 0 0 0 -63 0.468909 0 0 0 0 -64 0.468909 0 0 0 0 -65 0.468909 0 0 0 0 -66 0.468909 0 0 0 0 -67 0.468909 0 0 0 0 -68 0.468909 0 0 0 0 -69 0.468909 0 0 0 0 -70 0.468909 0 0 0 0 -71 0.468909 0 0 0 0 -72 0.468909 0 0 0 0 -73 0.468909 0 0 0 0 -74 0.489297 0 0 0 0 -75 0.489297 0 0 0 0 -76 0.489297 0 0 0 0 -77 0.489297 0 0 0 0 -78 0.489297 0 0 0 0 -79 0.489297 0 0 0 0 -80 0.489297 0 0 0 0 -81 0.489297 0 0 0 0 -82 0.489297 0 0 0 0 -83 0.509684 0 0 0 0 -84 0.509684 0 0 0 0 -85 0.509684 0 0 0 0 -86 0.509684 0 0 0 0 -87 0.509684 0 0 0 0 -88 0.509684 0 0 0 0 -89 0.509684 0 0 0 0 -90 0.509684 0 0 0 0 -91 0.509684 0 0 0 0 -92 0.570846 0 0 0 0 -93 0.632008 0 0 0 0 -94 0.632008 0 0 0 0 -95 0.632008 0 0 0 0 -96 0.632008 0 0 0 0 -97 0.632008 0 0 0 0 -98 0.632008 0 0 0 0 -99 0.632008 0 0 0 0 -100 0.632008 0 0 0 0 -101 0.632008 0 0 0 0 -102 0.632008 0 0 0 0 -103 0.632008 0 0 0 0 -104 0.632008 0 0 0 0 -105 0.632008 0 0 0 0 -106 0.632008 0 0 0 0 -107 0.632008 0 0 0 0 -108 0.632008 0 0 0 0 +>>Adapter Content warn +#Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence PolyA PolyG +1 0 0 0 0 0.0203874 0 +2 0 0 0 0 0.0815494 0 +3 0 0 0 0 0.142712 0 +4 0 0 0 0 0.183486 0 +5 0 0 0 0 0.285423 0 +6 0 0 0 0 0.38736 0 +7 0 0 0 0 0.489297 0 +8 0 0 0 0 0.591233 0 +9 0 0 0 0 0.672783 0 +10 0 0 0 0 0.754332 0 +11 0 0 0 0 0.835882 0 +12 0 0 0 0 0.917431 0 +13 0 0 0 0 1.01937 0 +14 0 0 0 0 1.1213 0 +15 0 0 0 0 1.24363 0 +16 0 0 0 0 1.34557 0 +17 0 0 0 0 1.46789 0 +18 0 0 0 0 1.59021 0 +19 0 0 0 0 1.67176 0 +20 0.122324 0 0 0 1.75331 0 +21 0.122324 0 0 0 1.83486 0 +22 0.122324 0 0 0 1.89602 0 +23 0.122324 0 0 0 1.95719 0 +24 0.122324 0 0 0 2.01835 0 +25 0.122324 0 0 0 2.07951 0 +26 0.122324 0 0 0 2.14067 0 +27 0.142712 0 0 0 2.20183 0 +28 0.183486 0 0 0 2.263 0 +29 0.224261 0 0 0 2.32416 0 +30 0.224261 0 0 0 2.38532 0 +31 0.224261 0 0 0 2.44648 0 +32 0.224261 0 0 0 2.50765 0 +33 0.224261 0 0 0 2.60958 0 +34 0.224261 0 0 0 2.71152 0 +35 0.265036 0 0 0 2.81346 0 +36 0.285423 0 0 0 2.89501 0 +37 0.326198 0 0 0 2.99694 0 +38 0.407747 0 0 0 3.09888 0 +39 0.468909 0 0 0 3.20082 0 +40 0.468909 0 0 0 3.30275 0 +41 0.468909 0 0 0 3.40469 0 +42 0.468909 0 0 0 3.48624 0 +43 0.468909 0 0 0 3.56779 0 +44 0.468909 0 0 0 3.60856 0 +45 0.468909 0 0 0 3.62895 0 +46 0.468909 0 0 0 3.64934 0 +47 0.468909 0 0 0 3.66972 0 +48 0.468909 0 0 0 3.69011 0 +49 0.468909 0 0 0 3.7105 0 +50 0.468909 0 0 0 3.7105 0 +51 0.468909 0 0 0 3.7105 0 +52 0.468909 0 0 0 3.7105 0 +53 0.468909 0 0 0 3.7105 0 +54 0.468909 0 0 0 3.7105 0 +55 0.468909 0 0 0 3.7105 0 +56 0.468909 0 0 0 3.7105 0 +57 0.468909 0 0 0 3.7105 0 +58 0.468909 0 0 0 3.7105 0 +59 0.468909 0 0 0 3.73089 0 +60 0.468909 0 0 0 3.75127 0 +61 0.468909 0 0 0 3.77166 0 +62 0.468909 0 0 0 3.81244 0 +63 0.468909 0 0 0 3.85321 0 +64 0.468909 0 0 0 3.89399 0 +65 0.468909 0 0 0 3.93476 0 +66 0.468909 0 0 0 3.97554 0 +67 0.468909 0 0 0 4.01631 0 +68 0.468909 0 0 0 4.05708 0 +69 0.468909 0 0 0 4.09786 0 +70 0.468909 0 0 0 4.13863 0 +71 0.468909 0 0 0 4.17941 0 +72 0.468909 0 0 0 4.22018 0 +73 0.468909 0 0 0 4.26096 0 +74 0.489297 0 0 0 4.32212 0 +75 0.489297 0 0 0 4.38328 0 +76 0.489297 0 0 0 4.42406 0 +77 0.489297 0 0 0 4.46483 0 +78 0.489297 0 0 0 4.50561 0 +79 0.489297 0 0 0 4.54638 0 +80 0.489297 0 0 0 4.58716 0 +81 0.489297 0 0 0 4.62793 0 +82 0.489297 0 0 0 4.66871 0 +83 0.509684 0 0 0 4.70948 0 +84 0.509684 0 0 0 4.75025 0 +85 0.509684 0 0 0 4.79103 0 +86 0.509684 0 0 0 4.8318 0 +87 0.509684 0 0 0 4.91335 0 +88 0.509684 0 0 0 4.9949 0 +89 0.509684 0 0 0 5.05607 0 +90 0.509684 0 0 0 5.09684 0 +91 0.509684 0 0 0 5.158 0 +92 0.570846 0 0 0 5.21916 0 +93 0.632008 0 0 0 5.28033 0 +94 0.632008 0 0 0 5.34149 0 +95 0.632008 0 0 0 5.40265 0 +96 0.632008 0 0 0 5.46381 0 +97 0.632008 0 0 0 5.52497 0 +98 0.632008 0 0 0 5.52497 0 +99 0.632008 0 0 0 5.52497 0 +100 0.632008 0 0 0 5.52497 0 +101 0.632008 0 0 0 5.52497 0 +102 0.632008 0 0 0 5.52497 0 +103 0.632008 0 0 0 5.52497 0 +104 0.632008 0 0 0 5.52497 0 +105 0.632008 0 0 0 5.52497 0 +106 0.632008 0 0 0 5.52497 0 +107 0.632008 0 0 0 5.52497 0 +108 0.632008 0 0 0 5.52497 0 >>END_MODULE diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report_bisulfite_summary.txt --- a/test-data/fastqc_report_bisulfite_summary.txt Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report_bisulfite_summary.txt Tue Sep 10 19:02:42 2024 +0000 @@ -8,4 +8,4 @@ WARN Sequence Length Distribution 1000trimmed_fastq PASS Sequence Duplication Levels 1000trimmed_fastq WARN Overrepresented sequences 1000trimmed_fastq -PASS Adapter Content 1000trimmed_fastq +WARN Adapter Content 1000trimmed_fastq diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report_contaminants.html --- a/test-data/fastqc_report_contaminants.html Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report_contaminants.html Tue Sep 10 19:02:42 2024 +0000 @@ -1,2 +1,2 @@ - 1000trimmed_fastq - report
Report
Mon May 27 16:52:55 2024 -
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : pass

Falco 1.2.2
\ No newline at end of file + 1000trimmed_fastq - report
Report
Sun Sep 1 15:39:23 2024 +
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : warn

Falco 1.2.3
\ No newline at end of file diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report_customlimits.html --- a/test-data/fastqc_report_customlimits.html Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report_customlimits.html Tue Sep 10 19:02:42 2024 +0000 @@ -1,2 +1,2 @@ - 1000trimmed_fastq - report
Report
Mon May 27 16:57:19 2024 -
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : pass

Falco 1.2.2
\ No newline at end of file + 1000trimmed_fastq - report
Report
Sun Sep 1 15:40:01 2024 +
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : warn

Falco 1.2.3
\ No newline at end of file diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report_nogroup.html --- a/test-data/fastqc_report_nogroup.html Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report_nogroup.html Tue Sep 10 19:02:42 2024 +0000 @@ -1,2 +1,2 @@ - 1000trimmed_fastq - report
Report
Mon May 27 17:04:08 2024 -
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : pass

Falco 1.2.2
\ No newline at end of file + 1000trimmed_fastq - report
Report
Sun Sep 1 15:40:19 2024 +
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : warn

Falco 1.2.3
\ No newline at end of file diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report_reverse_complement.html --- a/test-data/fastqc_report_reverse_complement.html Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report_reverse_complement.html Tue Sep 10 19:02:42 2024 +0000 @@ -1,2 +1,2 @@ - 1000trimmed_fastq - report
Report
Mon May 27 17:10:44 2024 -
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : pass

Falco 1.2.2
\ No newline at end of file + 1000trimmed_fastq - report
Report
Sun Sep 1 15:41:08 2024 +
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : warn

SequenceCountPercentagePossible Source
ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT330.672783No Hit

Adapter Content : warn

Falco 1.2.3
\ No newline at end of file diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report_reverse_complement.txt --- a/test-data/fastqc_report_reverse_complement.txt Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report_reverse_complement.txt Tue Sep 10 19:02:42 2024 +0000 @@ -1,4 +1,4 @@ -##Falco 1.2.2 +##Falco 1.2.3 >>Basic Statistics pass #Measure Value Filename 1000trimmed_fastq @@ -1597,114 +1597,114 @@ #Sequence Count Percentage Possible Source ATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCATGCAT 33 0.672783 No Hit >>END_MODULE ->>Adapter Content pass -#Position Illumina Universal Adapter Illumina Small RNA 3 prime Adapter Illumina Small RNA 5 prime Adapter Nextera Transposase Sequence SOLID Small RNA Adapter -1 0 0 0 0 0 -2 0 0 0 0 0 -3 0 0 0 0 0 -4 0 0 0 0 0 -5 0 0 0 0 0 -6 0 0 0 0 0 -7 0 0 0 0 0 -8 0 0 0 0 0 -9 0 0 0 0 0 -10 0 0 0 0 0 -11 0 0 0 0 0 -12 0 0 0 0 0 -13 0 0 0 0 0 -14 0 0 0 0 0 -15 0 0 0 0 0 -16 0 0 0 0 0 -17 0 0 0 0 0 -18 0 0 0 0 0 -19 0 0 0 0 0 -20 0.122324 0 0 0 0 -21 0.122324 0 0 0 0 -22 0.122324 0 0 0 0 -23 0.122324 0 0 0 0 -24 0.122324 0 0 0 0 -25 0.122324 0 0 0 0 -26 0.122324 0 0 0 0 -27 0.142712 0 0 0 0 -28 0.183486 0 0 0 0 -29 0.224261 0 0 0 0 -30 0.224261 0 0 0 0 -31 0.224261 0 0 0 0 -32 0.224261 0 0 0 0 -33 0.224261 0 0 0 0 -34 0.224261 0 0 0 0 -35 0.265036 0 0 0 0 -36 0.285423 0 0 0 0 -37 0.326198 0 0 0 0 -38 0.407747 0 0 0 0 -39 0.468909 0 0 0 0 -40 0.468909 0 0 0 0 -41 0.468909 0 0 0 0 -42 0.468909 0 0 0 0 -43 0.468909 0 0 0 0 -44 0.468909 0 0 0 0 -45 0.468909 0 0 0 0 -46 0.468909 0 0 0 0 -47 0.468909 0 0 0 0 -48 0.468909 0 0 0 0 -49 0.468909 0 0 0 0 -50 0.468909 0 0 0 0 -51 0.468909 0 0 0 0 -52 0.468909 0 0 0 0 -53 0.468909 0 0 0 0 -54 0.468909 0 0 0 0 -55 0.468909 0 0 0 0 -56 0.468909 0 0 0 0 -57 0.468909 0 0 0 0 -58 0.468909 0 0 0 0 -59 0.468909 0 0 0 0 -60 0.468909 0 0 0 0 -61 0.468909 0 0 0 0 -62 0.468909 0 0 0 0 -63 0.468909 0 0 0 0 -64 0.468909 0 0 0 0 -65 0.468909 0 0 0 0 -66 0.468909 0 0 0 0 -67 0.468909 0 0 0 0 -68 0.468909 0 0 0 0 -69 0.468909 0 0 0 0 -70 0.468909 0 0 0 0 -71 0.468909 0 0 0 0 -72 0.468909 0 0 0 0 -73 0.468909 0 0 0 0 -74 0.489297 0 0 0 0 -75 0.489297 0 0 0 0 -76 0.489297 0 0 0 0 -77 0.489297 0 0 0 0 -78 0.489297 0 0 0 0 -79 0.489297 0 0 0 0 -80 0.489297 0 0 0 0 -81 0.489297 0 0 0 0 -82 0.489297 0 0 0 0 -83 0.509684 0 0 0 0 -84 0.509684 0 0 0 0 -85 0.509684 0 0 0 0 -86 0.509684 0 0 0 0 -87 0.509684 0 0 0 0 -88 0.509684 0 0 0 0 -89 0.509684 0 0 0 0 -90 0.509684 0 0 0 0 -91 0.509684 0 0 0 0 -92 0.570846 0 0 0 0 -93 0.632008 0 0 0 0 -94 0.632008 0 0 0 0 -95 0.632008 0 0 0 0 -96 0.632008 0 0 0 0 -97 0.632008 0 0 0 0 -98 0.632008 0 0 0 0 -99 0.632008 0 0 0 0 -100 0.632008 0 0 0 0 -101 0.632008 0 0 0 0 -102 0.632008 0 0 0 0 -103 0.632008 0 0 0 0 -104 0.632008 0 0 0 0 -105 0.632008 0 0 0 0 -106 0.632008 0 0 0 0 -107 0.632008 0 0 0 0 -108 0.632008 0 0 0 0 +>>Adapter Content warn +#Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence PolyA PolyG +1 0 0 0 0 0.0203874 0 +2 0 0 0 0 0.0815494 0 +3 0 0 0 0 0.142712 0 +4 0 0 0 0 0.183486 0 +5 0 0 0 0 0.285423 0 +6 0 0 0 0 0.38736 0 +7 0 0 0 0 0.489297 0 +8 0 0 0 0 0.591233 0 +9 0 0 0 0 0.672783 0 +10 0 0 0 0 0.754332 0 +11 0 0 0 0 0.835882 0 +12 0 0 0 0 0.917431 0 +13 0 0 0 0 1.01937 0 +14 0 0 0 0 1.1213 0 +15 0 0 0 0 1.24363 0 +16 0 0 0 0 1.34557 0 +17 0 0 0 0 1.46789 0 +18 0 0 0 0 1.59021 0 +19 0 0 0 0 1.67176 0 +20 0.122324 0 0 0 1.75331 0 +21 0.122324 0 0 0 1.83486 0 +22 0.122324 0 0 0 1.89602 0 +23 0.122324 0 0 0 1.95719 0 +24 0.122324 0 0 0 2.01835 0 +25 0.122324 0 0 0 2.07951 0 +26 0.122324 0 0 0 2.14067 0 +27 0.142712 0 0 0 2.20183 0 +28 0.183486 0 0 0 2.263 0 +29 0.224261 0 0 0 2.32416 0 +30 0.224261 0 0 0 2.38532 0 +31 0.224261 0 0 0 2.44648 0 +32 0.224261 0 0 0 2.50765 0 +33 0.224261 0 0 0 2.60958 0 +34 0.224261 0 0 0 2.71152 0 +35 0.265036 0 0 0 2.81346 0 +36 0.285423 0 0 0 2.89501 0 +37 0.326198 0 0 0 2.99694 0 +38 0.407747 0 0 0 3.09888 0 +39 0.468909 0 0 0 3.20082 0 +40 0.468909 0 0 0 3.30275 0 +41 0.468909 0 0 0 3.40469 0 +42 0.468909 0 0 0 3.48624 0 +43 0.468909 0 0 0 3.56779 0 +44 0.468909 0 0 0 3.60856 0 +45 0.468909 0 0 0 3.62895 0 +46 0.468909 0 0 0 3.64934 0 +47 0.468909 0 0 0 3.66972 0 +48 0.468909 0 0 0 3.69011 0 +49 0.468909 0 0 0 3.7105 0 +50 0.468909 0 0 0 3.7105 0 +51 0.468909 0 0 0 3.7105 0 +52 0.468909 0 0 0 3.7105 0 +53 0.468909 0 0 0 3.7105 0 +54 0.468909 0 0 0 3.7105 0 +55 0.468909 0 0 0 3.7105 0 +56 0.468909 0 0 0 3.7105 0 +57 0.468909 0 0 0 3.7105 0 +58 0.468909 0 0 0 3.7105 0 +59 0.468909 0 0 0 3.73089 0 +60 0.468909 0 0 0 3.75127 0 +61 0.468909 0 0 0 3.77166 0 +62 0.468909 0 0 0 3.81244 0 +63 0.468909 0 0 0 3.85321 0 +64 0.468909 0 0 0 3.89399 0 +65 0.468909 0 0 0 3.93476 0 +66 0.468909 0 0 0 3.97554 0 +67 0.468909 0 0 0 4.01631 0 +68 0.468909 0 0 0 4.05708 0 +69 0.468909 0 0 0 4.09786 0 +70 0.468909 0 0 0 4.13863 0 +71 0.468909 0 0 0 4.17941 0 +72 0.468909 0 0 0 4.22018 0 +73 0.468909 0 0 0 4.26096 0 +74 0.489297 0 0 0 4.32212 0 +75 0.489297 0 0 0 4.38328 0 +76 0.489297 0 0 0 4.42406 0 +77 0.489297 0 0 0 4.46483 0 +78 0.489297 0 0 0 4.50561 0 +79 0.489297 0 0 0 4.54638 0 +80 0.489297 0 0 0 4.58716 0 +81 0.489297 0 0 0 4.62793 0 +82 0.489297 0 0 0 4.66871 0 +83 0.509684 0 0 0 4.70948 0 +84 0.509684 0 0 0 4.75025 0 +85 0.509684 0 0 0 4.79103 0 +86 0.509684 0 0 0 4.8318 0 +87 0.509684 0 0 0 4.91335 0 +88 0.509684 0 0 0 4.9949 0 +89 0.509684 0 0 0 5.05607 0 +90 0.509684 0 0 0 5.09684 0 +91 0.509684 0 0 0 5.158 0 +92 0.570846 0 0 0 5.21916 0 +93 0.632008 0 0 0 5.28033 0 +94 0.632008 0 0 0 5.34149 0 +95 0.632008 0 0 0 5.40265 0 +96 0.632008 0 0 0 5.46381 0 +97 0.632008 0 0 0 5.52497 0 +98 0.632008 0 0 0 5.52497 0 +99 0.632008 0 0 0 5.52497 0 +100 0.632008 0 0 0 5.52497 0 +101 0.632008 0 0 0 5.52497 0 +102 0.632008 0 0 0 5.52497 0 +103 0.632008 0 0 0 5.52497 0 +104 0.632008 0 0 0 5.52497 0 +105 0.632008 0 0 0 5.52497 0 +106 0.632008 0 0 0 5.52497 0 +107 0.632008 0 0 0 5.52497 0 +108 0.632008 0 0 0 5.52497 0 >>END_MODULE diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report_reverse_complement_summary.txt --- a/test-data/fastqc_report_reverse_complement_summary.txt Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report_reverse_complement_summary.txt Tue Sep 10 19:02:42 2024 +0000 @@ -8,4 +8,4 @@ WARN Sequence Length Distribution 1000trimmed_fastq PASS Sequence Duplication Levels 1000trimmed_fastq WARN Overrepresented sequences 1000trimmed_fastq -PASS Adapter Content 1000trimmed_fastq +WARN Adapter Content 1000trimmed_fastq diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report_subsample.html --- a/test-data/fastqc_report_subsample.html Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report_subsample.html Tue Sep 10 19:02:42 2024 +0000 @@ -1,2 +1,2 @@ - 1000trimmed_fastq - report
Report
Mon May 27 17:06:18 2024 -
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : pass

No overrepresented sequences

Adapter Content : pass

Falco 1.2.2
\ No newline at end of file + 1000trimmed_fastq - report
Report
Sun Sep 1 15:40:37 2024 +
1000trimmed_fastq

Summary

Basic Statistics: pass

MeasureValue
Filename1000trimmed_fastq
File typeConventional base calls
EncodingSanger / Illumina 1.9
Total Sequences4905
Sequences Flagged As Poor Quality0
Sequence length1 - 108
%GC:41

Per base sequence quality: pass

Per tile sequence quality : fail

Per sequence quality scores : pass

Per base sequence content : fail

Per sequence GC content: warn

Per base N content : pass

Sequence Length Distribution : warn

Sequence Duplication Levels : pass

Overrepresented sequences : pass

No overrepresented sequences

Adapter Content : pass

Falco 1.2.3
\ No newline at end of file diff -r eee1a2f6abd8 -r babbcf02d35c test-data/fastqc_report_subsample.txt --- a/test-data/fastqc_report_subsample.txt Sun Jun 30 11:28:30 2024 +0000 +++ b/test-data/fastqc_report_subsample.txt Tue Sep 10 19:02:42 2024 +0000 @@ -1,4 +1,4 @@ -##Falco 1.2.2 +##Falco 1.2.3 >>Basic Statistics pass #Measure Value Filename 1000trimmed_fastq @@ -1590,113 +1590,113 @@ >>Overrepresented sequences pass >>END_MODULE >>Adapter Content pass -#Position Illumina Universal Adapter Illumina Small RNA 3 prime Adapter Illumina Small RNA 5 prime Adapter Nextera Transposase Sequence SOLID Small RNA Adapter -1 0 0 0 0 0 -2 0 0 0 0 0 -3 0 0 0 0 0 -4 0 0 0 0 0 -5 0 0 0 0 0 -6 0 0 0 0 0 -7 0 0 0 0 0 -8 0 0 0 0 0 -9 0 0 0 0 0 -10 0 0 0 0 0 -11 0 0 0 0 0 -12 0 0 0 0 0 -13 0 0 0 0 0 -14 0 0 0 0 0 -15 0 0 0 0 0 -16 0 0 0 0 0 -17 0 0 0 0 0 -18 0 0 0 0 0 -19 0 0 0 0 0 -20 0.0203874 0 0 0 0 -21 0.0203874 0 0 0 0 -22 0.0203874 0 0 0 0 -23 0.0203874 0 0 0 0 -24 0.0203874 0 0 0 0 -25 0.0203874 0 0 0 0 -26 0.0203874 0 0 0 0 -27 0.0203874 0 0 0 0 -28 0.0203874 0 0 0 0 -29 0.0203874 0 0 0 0 -30 0.0203874 0 0 0 0 -31 0.0203874 0 0 0 0 -32 0.0203874 0 0 0 0 -33 0.0203874 0 0 0 0 -34 0.0203874 0 0 0 0 -35 0.0203874 0 0 0 0 -36 0.0203874 0 0 0 0 -37 0.0203874 0 0 0 0 -38 0.0407747 0 0 0 0 -39 0.0611621 0 0 0 0 -40 0.0611621 0 0 0 0 -41 0.0611621 0 0 0 0 -42 0.0611621 0 0 0 0 -43 0.0611621 0 0 0 0 -44 0.0611621 0 0 0 0 -45 0.0611621 0 0 0 0 -46 0.0611621 0 0 0 0 -47 0.0611621 0 0 0 0 -48 0.0611621 0 0 0 0 -49 0.0611621 0 0 0 0 -50 0.0611621 0 0 0 0 -51 0.0611621 0 0 0 0 -52 0.0611621 0 0 0 0 -53 0.0611621 0 0 0 0 -54 0.0611621 0 0 0 0 -55 0.0611621 0 0 0 0 -56 0.0611621 0 0 0 0 -57 0.0611621 0 0 0 0 -58 0.0611621 0 0 0 0 -59 0.0611621 0 0 0 0 -60 0.0611621 0 0 0 0 -61 0.0611621 0 0 0 0 -62 0.0611621 0 0 0 0 -63 0.0611621 0 0 0 0 -64 0.0611621 0 0 0 0 -65 0.0611621 0 0 0 0 -66 0.0611621 0 0 0 0 -67 0.0611621 0 0 0 0 -68 0.0611621 0 0 0 0 -69 0.0611621 0 0 0 0 -70 0.0611621 0 0 0 0 -71 0.0611621 0 0 0 0 -72 0.0611621 0 0 0 0 -73 0.0611621 0 0 0 0 -74 0.0815494 0 0 0 0 -75 0.0815494 0 0 0 0 -76 0.0815494 0 0 0 0 -77 0.0815494 0 0 0 0 -78 0.0815494 0 0 0 0 -79 0.0815494 0 0 0 0 -80 0.0815494 0 0 0 0 -81 0.0815494 0 0 0 0 -82 0.0815494 0 0 0 0 -83 0.0815494 0 0 0 0 -84 0.0815494 0 0 0 0 -85 0.0815494 0 0 0 0 -86 0.0815494 0 0 0 0 -87 0.0815494 0 0 0 0 -88 0.0815494 0 0 0 0 -89 0.0815494 0 0 0 0 -90 0.0815494 0 0 0 0 -91 0.0815494 0 0 0 0 -92 0.101937 0 0 0 0 -93 0.122324 0 0 0 0 -94 0.122324 0 0 0 0 -95 0.122324 0 0 0 0 -96 0.122324 0 0 0 0 -97 0.122324 0 0 0 0 -98 0.122324 0 0 0 0 -99 0.122324 0 0 0 0 -100 0.122324 0 0 0 0 -101 0.122324 0 0 0 0 -102 0.122324 0 0 0 0 -103 0.122324 0 0 0 0 -104 0.122324 0 0 0 0 -105 0.122324 0 0 0 0 -106 0.122324 0 0 0 0 -107 0.122324 0 0 0 0 -108 0.122324 0 0 0 0 +#Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence PolyA PolyG +1 0 0 0 0 0 0 +2 0 0 0 0 0.0203874 0 +3 0 0 0 0 0.0407747 0 +4 0 0 0 0 0.0407747 0 +5 0 0 0 0 0.0407747 0 +6 0 0 0 0 0.0407747 0 +7 0 0 0 0 0.0407747 0 +8 0 0 0 0 0.0407747 0 +9 0 0 0 0 0.0407747 0 +10 0 0 0 0 0.0407747 0 +11 0 0 0 0 0.0407747 0 +12 0 0 0 0 0.0407747 0 +13 0 0 0 0 0.0407747 0 +14 0 0 0 0 0.0407747 0 +15 0 0 0 0 0.0407747 0 +16 0 0 0 0 0.0407747 0 +17 0 0 0 0 0.0611621 0 +18 0 0 0 0 0.0815494 0 +19 0 0 0 0 0.0815494 0 +20 0.0203874 0 0 0 0.0815494 0 +21 0.0203874 0 0 0 0.0815494 0 +22 0.0203874 0 0 0 0.0815494 0 +23 0.0203874 0 0 0 0.0815494 0 +24 0.0203874 0 0 0 0.0815494 0 +25 0.0203874 0 0 0 0.0815494 0 +26 0.0203874 0 0 0 0.0815494 0 +27 0.0203874 0 0 0 0.0815494 0 +28 0.0203874 0 0 0 0.0815494 0 +29 0.0203874 0 0 0 0.0815494 0 +30 0.0203874 0 0 0 0.0815494 0 +31 0.0203874 0 0 0 0.0815494 0 +32 0.0203874 0 0 0 0.0815494 0 +33 0.0203874 0 0 0 0.0815494 0 +34 0.0203874 0 0 0 0.0815494 0 +35 0.0203874 0 0 0 0.0815494 0 +36 0.0203874 0 0 0 0.0815494 0 +37 0.0203874 0 0 0 0.0815494 0 +38 0.0407747 0 0 0 0.0815494 0 +39 0.0611621 0 0 0 0.0815494 0 +40 0.0611621 0 0 0 0.0815494 0 +41 0.0611621 0 0 0 0.0815494 0 +42 0.0611621 0 0 0 0.0815494 0 +43 0.0611621 0 0 0 0.0815494 0 +44 0.0611621 0 0 0 0.0815494 0 +45 0.0611621 0 0 0 0.0815494 0 +46 0.0611621 0 0 0 0.0815494 0 +47 0.0611621 0 0 0 0.0815494 0 +48 0.0611621 0 0 0 0.0815494 0 +49 0.0611621 0 0 0 0.0815494 0 +50 0.0611621 0 0 0 0.0815494 0 +51 0.0611621 0 0 0 0.0815494 0 +52 0.0611621 0 0 0 0.0815494 0 +53 0.0611621 0 0 0 0.0815494 0 +54 0.0611621 0 0 0 0.0815494 0 +55 0.0611621 0 0 0 0.0815494 0 +56 0.0611621 0 0 0 0.0815494 0 +57 0.0611621 0 0 0 0.0815494 0 +58 0.0611621 0 0 0 0.0815494 0 +59 0.0611621 0 0 0 0.0815494 0 +60 0.0611621 0 0 0 0.0815494 0 +61 0.0611621 0 0 0 0.0815494 0 +62 0.0611621 0 0 0 0.0815494 0 +63 0.0611621 0 0 0 0.0815494 0 +64 0.0611621 0 0 0 0.0815494 0 +65 0.0611621 0 0 0 0.0815494 0 +66 0.0611621 0 0 0 0.0815494 0 +67 0.0611621 0 0 0 0.0815494 0 +68 0.0611621 0 0 0 0.0815494 0 +69 0.0611621 0 0 0 0.0815494 0 +70 0.0611621 0 0 0 0.0815494 0 +71 0.0611621 0 0 0 0.0815494 0 +72 0.0611621 0 0 0 0.0815494 0 +73 0.0611621 0 0 0 0.0815494 0 +74 0.0815494 0 0 0 0.0815494 0 +75 0.0815494 0 0 0 0.0815494 0 +76 0.0815494 0 0 0 0.0815494 0 +77 0.0815494 0 0 0 0.0815494 0 +78 0.0815494 0 0 0 0.0815494 0 +79 0.0815494 0 0 0 0.0815494 0 +80 0.0815494 0 0 0 0.0815494 0 +81 0.0815494 0 0 0 0.0815494 0 +82 0.0815494 0 0 0 0.0815494 0 +83 0.0815494 0 0 0 0.0815494 0 +84 0.0815494 0 0 0 0.0815494 0 +85 0.0815494 0 0 0 0.0815494 0 +86 0.0815494 0 0 0 0.0815494 0 +87 0.0815494 0 0 0 0.0815494 0 +88 0.0815494 0 0 0 0.0815494 0 +89 0.0815494 0 0 0 0.0815494 0 +90 0.0815494 0 0 0 0.0815494 0 +91 0.0815494 0 0 0 0.0815494 0 +92 0.101937 0 0 0 0.0815494 0 +93 0.122324 0 0 0 0.0815494 0 +94 0.122324 0 0 0 0.0815494 0 +95 0.122324 0 0 0 0.0815494 0 +96 0.122324 0 0 0 0.0815494 0 +97 0.122324 0 0 0 0.0815494 0 +98 0.122324 0 0 0 0.0815494 0 +99 0.122324 0 0 0 0.0815494 0 +100 0.122324 0 0 0 0.0815494 0 +101 0.122324 0 0 0 0.0815494 0 +102 0.122324 0 0 0 0.0815494 0 +103 0.122324 0 0 0 0.0815494 0 +104 0.122324 0 0 0 0.0815494 0 +105 0.122324 0 0 0 0.0815494 0 +106 0.122324 0 0 0 0.0815494 0 +107 0.122324 0 0 0 0.0815494 0 +108 0.122324 0 0 0 0.0815494 0 >>END_MODULE