Xiangyang1984 patch 11

recipes/pneumo-typer/build.sh

@@ -4,7 +4,8 @@ set -x -e
 RM_DIR=${PREFIX}/share/pneumo-typer
 mkdir -p ${RM_DIR}
 mkdir -p ${PREFIX}/bin
-cp -r pneumo-typer-v1.0.1/* ${RM_DIR}
+ls -a
+cp -r $SRC_DIR/* ${RM_DIR}
 cp build_env_setup.sh ${RM_DIR}
 cp conda_build.sh ${RM_DIR}
 cp metadata_conda_debug.yaml ${RM_DIR}
@@ -13,6 +14,11 @@ cat <<END >>${PREFIX}/bin/pneumo-typer
 #!/bin/bash
 perl ${RM_DIR}/pneumo-typer.pl \$@
 END
+# Set a executable file for update_mlstdb_cgmlstdb.pl
+cat <<END >>${PREFIX}/bin/update_mlstdb_cgmlstdb
+#!/bin/bash
+perl ${RM_DIR}/update_mlstdb_cgmlstdb.pl \$@
+END
 
-
-chmod a+x ${PREFIX}/bin/pneumo-typer
+chmod a+x ${PREFIX}/bin/pneumo-typer
+chmod a+x ${PREFIX}/bin/update_mlstdb_cgmlstdb

recipes/pneumo-typer/meta.yaml

@@ -1,17 +1,17 @@
 {% set name = "pneumo-typer" %}
-{% set version = "1.0.1" %}
-{% set sha256 = "26ff14bc8bd48588e6b2332dfa25fcae2239a89d981a00622b16818a926cf194" %}
+{% set version = "1.0.2" %}
+{% set sha256 = "7f7e224ea5c13256a0597d981207147d1233b45581d11a71c1dd8ef99f14dbf4" %}
 
 package:
   name: "{{ name|lower }}"
   version: "{{ version }}"
 
 source:
-    url: https://www.microbialgenomic.cn/temp_dir/pneumo-typer-v{{ version }}.tar.gz
+    url: https://www.microbialgenomic.cn/gz/pneumo-typer-v{{ version }}.tar.gz
     sha256: {{ sha256 }}
 
 build:
-  number: 3
+  number: 2
   noarch: generic
   run_exports:
     - {{ pin_subpackage('pneumo-typer', max_pin="x") }}
@@ -21,9 +21,9 @@ requirements:
 
   run:
     - blast
-    - perl-gd
+    - perl-gd >=2.74
     - perl-gd-svg
-    - perl-svg
+    - perl-svg >=2.87
     - perl-bioperl-core
     - prodigal
     - blat
@@ -36,11 +36,14 @@ test:
     - makeblastdb -h
     #- blat
     - pneumo-typer -h
+    - update_mlstdb_cgmlstdb -h
     - prodigal -h
 
 about:
   home: 'https://www.microbialgenomic.cn/Pneumo-Typer.html'
-  summary: 'Pneumo-Typer is a comprehensive prediction and visualization of serotype and sequence type for streptococcus pneumoniae using assembled genomes.'
+  summary: 'Pneumo-Typer: An integrated tool for simultaneous identification of serotype, sequence type, and capsule genotype in Streptococcus pneumoniae.'
+  description: 'Pneumo-Typer is a stand-alone perl application, which requires blat, prodigal, NCBI BLAST+, and several perl Modules (GD, GD::SVG) to be installed before use.'
+  doc_url: 'https://github.com/Xiangyang1984/Pneumo-Typer'
   license: GNU General Public License v3.0 or any later version (GPL-3.0-or-later)
 
 extra: