nf_modules: rm ccin2p3_conda section in config files

src/nf_modules/samtools/sort_bams.config

@@ -34,22 +34,6 @@ profiles {
       }
     }
   }
-  ccin2p3_conda {
-    process{
-      withName: sort_bam {
-        beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
-        conda = "/sps/lbmc/common/miniconda3/envs/samtools_1.7"
-        scratch = true
-        stageInMode = "copy"
-        stageOutMode = "rsync"
-        executor = "sge"
-        clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n\
-        "
-        cpus = 1
-        queue = 'huge'
-      }
-    }
-  }
   ccin2p3 {
     singularity.enabled = true
     singularity.cacheDir = "/sps/lbmc/common/singularity/"

src/nf_modules/samtools/split_bams.config

@@ -33,22 +33,6 @@ profiles {
       }
     }
   }
-  ccin2p3_conda {
-    process{
-      withName: split_bam {
-        beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
-        conda = "/sps/lbmc/common/miniconda3/envs/samtools_1.7"
-        scratch = true
-        stageInMode = "copy"
-        stageOutMode = "rsync"
-        executor = "sge"
-        clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n\
-        "
-        cpus = 1
-        queue = 'huge'
-      }
-    }
-  }
   ccin2p3 {
     singularity.enabled = true
     singularity.cacheDir = "/sps/lbmc/common/singularity/"

src/nf_modules/sratoolkit/fastqdump.config

@@ -33,22 +33,6 @@ profiles {
       }
     }
   }
-  ccin2p3_conda {
-    process{
-      withName: fastq_dump {
-        beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
-        conda = "/sps/lbmc/common/miniconda3/envs/sratoolkit_2.8.2"
-        scratch = true
-        stageInMode = "copy"
-        stageOutMode = "rsync"
-        executor = "sge"
-        clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n\
-        "
-        cpus = 1
-        queue = 'huge'
-      }
-    }
-  }
   ccin2p3 {
     singularity.enabled = true
     singularity.cacheDir = "/sps/lbmc/common/singularity/"

src/nf_modules/subread/subread.config

@@ -51,34 +51,6 @@ profiles {
       }
     }
   }
-  ccin2p3_conda {
-    process{
-      withName: sort_bam {
-        beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
-        conda = "/sps/lbmc/common/miniconda3/envs/samtools_1.7"
-        scratch = true
-        stageInMode = "copy"
-        stageOutMode = "rsync"
-        executor = "sge"
-        clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n\
-        "
-        cpus = 1
-        queue = 'huge'
-      }
-      withName: counting {
-        beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
-        conda = "/sps/lbmc/common/miniconda3/envs/subread_1.6.4"
-        scratch = true
-        stageInMode = "copy"
-        stageOutMode = "rsync"
-        executor = "sge"
-        clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n\
-        "
-        cpus = 1
-        queue = 'huge'
-      }
-    }
-  }
   ccin2p3 {
     singularity.enabled = true
     singularity.cacheDir = "/sps/lbmc/common/singularity/"

src/nf_modules/urqt/trimming_paired.config

@@ -34,22 +34,6 @@ profiles {
       }
     }
   }
-  ccin2p3_conda {
-    process{
-      withName: trimming {
-        beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
-        conda = "/sps/lbmc/common/miniconda3/envs/urqt_d62c1f8"
-        scratch = true
-        stageInMode = "copy"
-        stageOutMode = "rsync"
-        executor = "sge"
-        clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n\
-        "
-        cpus = 1
-        queue = 'huge'
-      }
-    }
-  }
   ccin2p3 {
     singularity.enabled = true
     singularity.cacheDir = "/sps/lbmc/common/singularity/"

src/nf_modules/urqt/trimming_single.config

@@ -34,22 +34,6 @@ profiles {
       }
     }
   }
-  ccin2p3_conda {
-    process{
-      withName: trimming {
-        beforeScript = "source /sps/lbmc/common/miniconda3/init.sh"
-        conda = "/sps/lbmc/common/miniconda3/envs/urqt_d62c1f8"
-        scratch = true
-        stageInMode = "copy"
-        stageOutMode = "rsync"
-        executor = "sge"
-        clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n\
-        "
-        cpus = 1
-        queue = 'huge'
-      }
-    }
-  }
   ccin2p3 {
     singularity.enabled = true
     singularity.cacheDir = "/sps/lbmc/common/singularity/"