diff --git a/static/fastx_icons/barcode_splitter_output_example.png b/static/fastx_icons/barcode_splitter_output_example.png index 49dfd6c4cdb..c0f8944cc8b 100644 Binary files a/static/fastx_icons/barcode_splitter_output_example.png and b/static/fastx_icons/barcode_splitter_output_example.png differ diff --git a/static/fastx_icons/fasta_clipping_histogram_1.png b/static/fastx_icons/fasta_clipping_histogram_1.png index a9416f68d9d..b1b437d35b2 100644 Binary files a/static/fastx_icons/fasta_clipping_histogram_1.png and b/static/fastx_icons/fasta_clipping_histogram_1.png differ diff --git a/static/fastx_icons/fasta_clipping_histogram_2.png b/static/fastx_icons/fasta_clipping_histogram_2.png index 471be686bc1..3f74fa45fb9 100644 Binary files a/static/fastx_icons/fasta_clipping_histogram_2.png and b/static/fastx_icons/fasta_clipping_histogram_2.png differ diff --git a/static/fastx_icons/fastq_nucleotides_distribution_1.png b/static/fastx_icons/fastq_nucleotides_distribution_1.png index f238587ad02..5727acd65c0 100644 Binary files a/static/fastx_icons/fastq_nucleotides_distribution_1.png and b/static/fastx_icons/fastq_nucleotides_distribution_1.png differ diff --git a/static/fastx_icons/fastq_nucleotides_distribution_2.png b/static/fastx_icons/fastq_nucleotides_distribution_2.png index e935576e64c..cdc52a9c80b 100644 Binary files a/static/fastx_icons/fastq_nucleotides_distribution_2.png and b/static/fastx_icons/fastq_nucleotides_distribution_2.png differ diff --git a/static/fastx_icons/fastq_nucleotides_distribution_3.png b/static/fastx_icons/fastq_nucleotides_distribution_3.png index cae0c53a88c..39d679657ec 100644 Binary files a/static/fastx_icons/fastq_nucleotides_distribution_3.png and b/static/fastx_icons/fastq_nucleotides_distribution_3.png differ diff --git a/static/fastx_icons/fastq_nucleotides_distribution_4.png b/static/fastx_icons/fastq_nucleotides_distribution_4.png index 7f8369e57f4..c6ab9b41660 100644 Binary files a/static/fastx_icons/fastq_nucleotides_distribution_4.png and b/static/fastx_icons/fastq_nucleotides_distribution_4.png differ diff --git a/static/fastx_icons/fastq_quality_boxplot_1.png b/static/fastx_icons/fastq_quality_boxplot_1.png index c3621fabf6c..f721716a18c 100644 Binary files a/static/fastx_icons/fastq_quality_boxplot_1.png and b/static/fastx_icons/fastq_quality_boxplot_1.png differ diff --git a/static/fastx_icons/fastq_quality_boxplot_2.png b/static/fastx_icons/fastq_quality_boxplot_2.png index 95af2c1a648..0ce5baf5fda 100644 Binary files a/static/fastx_icons/fastq_quality_boxplot_2.png and b/static/fastx_icons/fastq_quality_boxplot_2.png differ diff --git a/static/fastx_icons/fastq_quality_boxplot_3.png b/static/fastx_icons/fastq_quality_boxplot_3.png index 6121c84edbe..e21c49be929 100644 Binary files a/static/fastx_icons/fastq_quality_boxplot_3.png and b/static/fastx_icons/fastq_quality_boxplot_3.png differ diff --git a/static/fastx_icons/fastx_clipper_example.png b/static/fastx_icons/fastx_clipper_example.png index 8d4ff4cc21a..d04d629d548 100644 Binary files a/static/fastx_icons/fastx_clipper_example.png and b/static/fastx_icons/fastx_clipper_example.png differ diff --git a/tool_conf.xml.sample b/tool_conf.xml.sample index 9a6ed944c1f..ce0104736fb 100644 --- a/tool_conf.xml.sample +++ b/tool_conf.xml.sample @@ -170,7 +170,7 @@
-
diff --git a/tools/samtools/sam2interval.xml b/tools/samtools/sam2interval.xml index e03b026fb24..682beab2059 100644 --- a/tools/samtools/sam2interval.xml +++ b/tools/samtools/sam2interval.xml @@ -55,7 +55,7 @@ into Interval format will produce the following if *Print all?* is set to **Yes* ref 28 33 - r003 16 ref 29 30 6H5M * 0 0 TAGGC * NM:i:0 ref 36 45 - r001 83 ref 37 30 9M = 7 -39 CAGCGCCAT * -Setting *Print all?* is set to **No** will generate the following:: +Setting *Print all?* to **No** will generate the following:: ref 6 22 + r001 ref 8 19 + r002