From fe855a1c234b26540f0ef9eb10376619ae781ab3 Mon Sep 17 00:00:00 2001
From: "Thiseas C. Lamnidis" <thisseass@gmail.com>
Date: Fri, 10 Jun 2022 11:03:01 +0200
Subject: [PATCH] Apply suggestions from code review

Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
---
 modules/sexdeterrmine/main.nf  |  4 ++--
 modules/sexdeterrmine/meta.yml | 10 +++++-----
 2 files changed, 7 insertions(+), 7 deletions(-)

diff --git a/modules/sexdeterrmine/main.nf b/modules/sexdeterrmine/main.nf
index dd8b5a70..98c72307 100644
--- a/modules/sexdeterrmine/main.nf
+++ b/modules/sexdeterrmine/main.nf
@@ -9,7 +9,7 @@ process SEXDETERRMINE {
 
     input:
     tuple val(meta), path(depth)
-    path(sample_list_file)
+    path sample_list_file
 
     output:
     tuple val(meta), path("*.json"), emit: json
@@ -23,7 +23,7 @@ process SEXDETERRMINE {
     def args = task.ext.args ?: ''
     def prefix = task.ext.prefix ?: "${meta.id}"
     def sample_list = sample_list_file ? '-f ${sample_list_file}' : ''
-    if ("$depth" == "${prefix}.tsv") error "Input and output names are the same, set prefix in module configuration to disambiguate!"
+    if ("$depth" == "${prefix}.tsv") error "Input depth and output TSV names are the same, set prefix in module configuration to disambiguate!"
 
     """
     sexdeterrmine \\
diff --git a/modules/sexdeterrmine/meta.yml b/modules/sexdeterrmine/meta.yml
index 6e24c817..3f56b0ab 100644
--- a/modules/sexdeterrmine/meta.yml
+++ b/modules/sexdeterrmine/meta.yml
@@ -1,9 +1,10 @@
 name: "sexdeterrmine"
 description: Calculate the relative coverage on the Gonosomes vs Autosomes from the output of samtools depth, with error bars.
 keywords:
-  - "sex determination"
-  - "genetic sex"
-  - "relative coverage"
+  - sex determination
+  - genetic sex
+  - relative coverage
+  - ancient dna
 tools:
   - "sexdeterrmine":
       description: "A python script carry out calculate the relative coverage of X and Y chromosomes, and their associated error bars, out of capture data."
@@ -19,10 +20,9 @@ input:
       description: |
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
-  #
   - depth:
       type: file
-      description: output from samtools depth (with header)
+      description: Output from samtools depth (with header)
       pattern: "*"
 
 output: