# HG changeset patch
# User iuc
# Date 1625492186 0
# Node ID 56022eb50bbd5a34703c6912e5db6793fbff7b23
# Parent  cd0874854f51db59784f4310656b8221542ed06f
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fasta_stats/ commit ecd37d0702cbe5cf9fa244c129a008b039d5e164"

diff -r cd0874854f51 -r 56022eb50bbd fasta-stats.pl
--- a/fasta-stats.pl	Mon Apr 26 10:01:43 2021 +0000
+++ b/fasta-stats.pl	Mon Jul 05 13:36:26 2021 +0000
@@ -55,14 +55,18 @@
 
 if (@len) {
   $stat{'num_bp'} = sum(@len);
-  $stat{'len_min'} = $len[0];
-  $stat{'len_max'} = $len[-1];
+  $stat{'len_min'} = $len[-1];
+  $stat{'len_max'} = $len[0];
   $stat{'len_median'} = $len[int(@len/2)];
   $stat{'len_mean'} = int( $stat{'num_bp'} / $stat{'num_seq'} ); 
   
   # calculate n50
   my $thresh = int 0.5 * $stat{'num_bp'};
   ($stat{'len_N50'}, $stat{'L50'}) = &calc_x50(\@len, $thresh);
+
+  #calculate n90
+  my $thresh = int 0.9 * $stat{'num_bp'};
+  ($stat{'len_N90'}, $stat{'L90'}) = &calc_x50(\@len, $thresh);
   
   #calculate NG50
   if ($calc_ng50) {
diff -r cd0874854f51 -r 56022eb50bbd fasta-stats.xml
--- a/fasta-stats.xml	Mon Apr 26 10:01:43 2021 +0000
+++ b/fasta-stats.xml	Mon Jul 05 13:36:26 2021 +0000
@@ -1,4 +1,4 @@
-<tool id="fasta-stats" name="Fasta Statistics" version="1.0.2">
+<tool id="fasta-stats" name="Fasta Statistics" version="1.0.3">
     <description>Display summary statistics for a fasta file.</description>
     <requirements>
         <requirement type="package" version="5.26">perl</requirement>
diff -r cd0874854f51 -r 56022eb50bbd test-data/ng50_out.txt
--- a/test-data/ng50_out.txt	Mon Apr 26 10:01:43 2021 +0000
+++ b/test-data/ng50_out.txt	Mon Jul 05 13:36:26 2021 +0000
@@ -1,12 +1,14 @@
 GC_content	51.1
 L50	2
+L90	7
 LG50	2
 len_N50	604
+len_N90	140
 len_NG50	604
-len_max	30
+len_max	1501
 len_mean	324
 len_median	182
-len_min	1501
+len_min	30
 num_A	895
 num_C	940
 num_G	807
diff -r cd0874854f51 -r 56022eb50bbd test-data/test_out.txt
--- a/test-data/test_out.txt	Mon Apr 26 10:01:43 2021 +0000
+++ b/test-data/test_out.txt	Mon Jul 05 13:36:26 2021 +0000
@@ -1,6 +1,8 @@
 GC_content	52.0
 L50	1
+L90	1
 len_N50	194780
+len_N90	194780
 len_max	194780
 len_mean	194780
 len_median	194780