Update irma recipe to version 1.1.4

recipes/irma/irma-check-dir-writable.patch

@@ -1,11 +1,11 @@
---- IRMA	2022-05-09 15:15:26.345377197 -0500
-+++ IRMA	2022-05-09 15:19:18.818708355 -0500
-@@ -111,7 +111,7 @@
+--- IRMA	2024-02-21 18:55:07.000000000 +0100
++++ IRMA	2024-10-21 10:37:13.744040564 +0200
+@@ -141,7 +141,7 @@
 
  # make sure output directory is valid
- if [ ! -w "$destination_directory" ];then 
--	abort "output directory not writable: $destination_directory"
-+  timestamp "WARNING: output directory may not be writable: $destination_directory"
+ if [ ! -w "$destination_directory" ]; then
+-    abort "output directory not writable: $destination_directory"
++    timestamp "WARNING: output directory may not be writable: $destination_directory"
  fi
 
  # test input files

recipes/irma/irma-fix-bin-cmds.patch

@@ -1,6 +1,6 @@
---- IRMA	2021-03-11 13:45:41.000000000 -0600
-+++ IRMA	2021-06-04 16:18:36.088939674 -0500
-@@ -140,14 +140,14 @@
+--- IRMA	2024-02-21 18:55:07.000000000 +0100
++++ IRMA	2024-10-21 10:52:21.634249943 +0200
+@@ -172,14 +172,14 @@
  check_prgm Rscript
  check_prgm perl
 
@@ -18,30 +18,29 @@
 -BASH=bash
 +RSCRIPT="Rscript"
 +BASH="bash"
+ MERGESAMPAIRS=("$spath/mergeSAMpairs.pl")
+ FASTQ_CONVERTER=("$spath/fastQ_converter.pl")
 
- # select cat for reading reads
- if [ "${#LEFT}" -gt "2" ];then
-@@ -204,14 +204,19 @@
- 		exit 0
- 	fi
+@@ -267,14 +267,18 @@
+     fi
  fi
-+
+ 
 +if [ -r "./irma_config.sh" ]; then
 +    echo "Loading config file 'irma_config.sh'"
 +    source "./irma_config.sh"
 +else
 +    echo "No user config file 'irma_config.sh' specified."
 +fi
 +
- [ ! -z "$LFASTM" ] && SECONDARY_SORT=$LFASTM
+ [ -n "$LFASTM" ] && SECONDARY_SORT=$LFASTM
  REF1_SET=$REF_SET
 
  # selection of zip utility
--if command -v "$spath"/pigz_$OS >/dev/null 2>&1;then
--	ZIP="$spath"/pigz_$OS
--	Z_OPTS="-p $DOUBLE_LOCAL_PROC -4"
--elif command -v pigz >/dev/null 2>&1;then
+-if command -v "$spath"/pigz_$OS > /dev/null 2>&1; then
+-    ZIP="$spath"/pigz_$OS
+-    Z_OPTS="-p $DOUBLE_LOCAL_PROC -4"
+-elif command -v pigz > /dev/null 2>&1; then
 +if command -v "pigz" >/dev/null 2>&1;then
- 	ZIP="pigz"
- 	Z_OPTS="-p $DOUBLE_LOCAL_PROC -4"
- elif command -v gzip >/dev/null 2>&1;then
+     ZIP="pigz"
+     Z_OPTS="-p $DOUBLE_LOCAL_PROC -4"
+ elif command -v gzip > /dev/null 2>&1; then

recipes/irma/meta.yaml

@@ -1,15 +1,13 @@
 {% set name = "IRMA" %}
-{% set version = "1.0.3" %}
-{% set hash_type = "sha256" %}
-{% set hash_value = "c5f6b452e1a6cfa8dcb02d1646c9e30e071557327a7cf11cab91a9b92e0eb455" %}
+{% set version = "1.1.4" %}
 
 package:
   name: {{ name|lower }}
   version: {{ version }}
 
 source:
-  url: https://wonder.cdc.gov/amd/flu/irma/flu-amd-202209.zip
-  {{ hash_type }}: {{ hash_value }}
+  url: https://wonder.cdc.gov/amd/flu/irma/flu-amd-202402.zip
+  sha256: 483183c5d18a718df5efe2bf4411f80e026fd169247e5b5cb614cb2e9998425b
   patches:
     - irma-fix-bin-cmds.patch
     - label-fix-bin-cmds.patch
@@ -18,6 +16,8 @@ source:
 build:
   number: 0
   noarch: generic
+  run_exports:
+    - {{ pin_subpackage('irma', max_pin="x.x") }}
 
 requirements:
   host: