*.config: fix singularity cacheDir path for in2p3

src/nf_modules/bedtools/fasta_from_bed.config

@@ -35,7 +35,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: fasta_from_bed {

src/nf_modules/bowtie/indexing.config

@@ -36,7 +36,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: index_fasta {

src/nf_modules/bowtie/mapping_paired.config

@@ -36,7 +36,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: mapping_fastq {

src/nf_modules/bowtie/mapping_single.config

@@ -36,7 +36,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: mapping_fastq {

src/nf_modules/bowtie2/indexing.config

@@ -36,7 +36,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: index_fasta {

src/nf_modules/bowtie2/mapping_paired.config

@@ -36,7 +36,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: mapping_fastq {

src/nf_modules/bowtie2/mapping_single.config

@@ -36,7 +36,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: mapping_fastq {

src/nf_modules/bwa/indexing.config

@@ -36,7 +36,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: index_fasta {

src/nf_modules/bwa/mapping_paired.config

@@ -36,7 +36,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: mapping_fastq {

src/nf_modules/cutadapt/adaptor_removal_paired.config

@@ -35,7 +35,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: adaptor_removal {

src/nf_modules/cutadapt/adaptor_removal_single.config

@@ -35,7 +35,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: adaptor_removal {

src/nf_modules/cutadapt/trimming_paired.config

@@ -35,7 +35,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: trimming {

src/nf_modules/cutadapt/trimming_single.config

@@ -35,7 +35,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: trimming {

src/nf_modules/deeptools/bam_to_bigwig.config

@@ -55,7 +55,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: index_bam {

src/nf_modules/deeptools/compute_matrix.config

@@ -36,7 +36,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: compute_matrix {

src/nf_modules/deeptools/plot_profile.config

@@ -36,7 +36,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: plot_profile {

src/nf_modules/fastp/fastp_paired.config

@@ -35,7 +35,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: fastp_fastq {

src/nf_modules/fastp/fastp_single.config

@@ -35,7 +35,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: fastp_fastq {

src/nf_modules/fastqc/fastqc_paired.config

@@ -35,7 +35,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: fastqc_fastq {

src/nf_modules/fastqc/fastqc_single.config

@@ -35,7 +35,7 @@ profiles {
   }
   ccin2p3 {
     singularity.enabled = true
-    singularity.cacheDir = "$baseDir/.src/singularity_in2p3/"
+    singularity.cacheDir = "$baseDir/.singularity_in2p3/"
     singularity.runOptions = "--bind /pbs,/sps,/scratch"
     process{
       withName: fastqc_fastq {