From 4fa9a1b1d9185a495066370e92b8d6a75b0c9ba4 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Tue, 5 Jun 2018 16:09:51 +0200
Subject: [PATCH] correctly mv nf_modules

---
 src/docker_modules/{nf_modules => }/BEDtools/2.25.0/Dockerfile    | 0
 .../{nf_modules => }/BEDtools/2.25.0/docker_init.sh               | 0
 src/docker_modules/{nf_modules => }/Bowtie2/2.3.4.1/Dockerfile    | 0
 .../{nf_modules => }/Bowtie2/2.3.4.1/docker_init.sh               | 0
 src/docker_modules/{nf_modules => }/Bowtie2/bowtie2.config        | 0
 src/docker_modules/{nf_modules => }/Bowtie2/bowtie2.nf            | 0
 src/docker_modules/{nf_modules => }/Bowtie2/tests/index.nf        | 0
 .../{nf_modules => }/Bowtie2/tests/mapping_paired.nf              | 0
 .../{nf_modules => }/Bowtie2/tests/mapping_single.nf              | 0
 src/docker_modules/{nf_modules => }/Bowtie2/tests/tests.sh        | 0
 src/docker_modules/{nf_modules => }/FastQC/0.11.5/Dockerfile      | 0
 src/docker_modules/{nf_modules => }/FastQC/0.11.5/docker_init.sh  | 0
 src/docker_modules/{nf_modules => }/HTSeq/0.8.0/Dockerfile        | 0
 src/docker_modules/{nf_modules => }/HTSeq/0.8.0/docker_init.sh    | 0
 src/docker_modules/{nf_modules => }/HTSeq/htseq.config            | 0
 src/docker_modules/{nf_modules => }/HTSeq/htseq.nf                | 0
 src/docker_modules/{nf_modules => }/HTSeq/tests/counting.nf       | 0
 src/docker_modules/{nf_modules => }/HTSeq/tests/tests.sh          | 0
 src/docker_modules/{nf_modules => }/Kallisto/0.43.1/Dockerfile    | 0
 .../{nf_modules => }/Kallisto/0.43.1/docker_init.sh               | 0
 src/docker_modules/{nf_modules => }/Kallisto/kallisto.config      | 0
 src/docker_modules/{nf_modules => }/Kallisto/kallisto.nf          | 0
 src/docker_modules/{nf_modules => }/Kallisto/tests/index.nf       | 0
 .../{nf_modules => }/Kallisto/tests/mapping_paired.nf             | 0
 .../{nf_modules => }/Kallisto/tests/mapping_single.nf             | 0
 src/docker_modules/{nf_modules => }/Kallisto/tests/tests.sh       | 0
 src/docker_modules/{nf_modules => }/MultiQC/1.0/Dockerfile        | 0
 src/docker_modules/{nf_modules => }/MultiQC/1.0/docker_init.sh    | 0
 src/docker_modules/{nf_modules => }/RSEM/1.3.0/Dockerfile         | 0
 src/docker_modules/{nf_modules => }/RSEM/1.3.0/docker_init.sh     | 0
 src/docker_modules/{nf_modules => }/RSEM/rsem.config              | 0
 src/docker_modules/{nf_modules => }/RSEM/rsem.nf                  | 0
 src/docker_modules/{nf_modules => }/RSEM/tests/index.nf           | 0
 .../{nf_modules => }/RSEM/tests/quantification_paired.nf          | 0
 .../{nf_modules => }/RSEM/tests/quantification_single.nf          | 0
 src/docker_modules/{nf_modules => }/RSEM/tests/tests.sh           | 0
 src/docker_modules/{nf_modules => }/SAMtools/1.7/Dockerfile       | 0
 src/docker_modules/{nf_modules => }/SAMtools/1.7/docker_init.sh   | 0
 src/docker_modules/{nf_modules => }/SAMtools/samtools.config      | 0
 src/docker_modules/{nf_modules => }/SAMtools/samtools.nf          | 0
 src/docker_modules/{nf_modules => }/SAMtools/tests/filter_bams.nf | 0
 src/docker_modules/{nf_modules => }/SAMtools/tests/index_bams.nf  | 0
 src/docker_modules/{nf_modules => }/SAMtools/tests/sort_bams.nf   | 0
 src/docker_modules/{nf_modules => }/SAMtools/tests/split_bams.nf  | 0
 src/docker_modules/{nf_modules => }/SAMtools/tests/tests.sh       | 0
 src/docker_modules/{nf_modules => }/SRAtoolkit/2.8.2/Dockerfile   | 0
 .../{nf_modules => }/SRAtoolkit/2.8.2/docker_init.sh              | 0
 src/docker_modules/{nf_modules => }/Salmon/0.8.2/Dockerfile       | 0
 src/docker_modules/{nf_modules => }/Salmon/0.8.2/docker_init.sh   | 0
 src/docker_modules/{nf_modules => }/TopHat/2.1.1/Dockerfile       | 0
 src/docker_modules/{nf_modules => }/TopHat/2.1.1/docker_init.sh   | 0
 src/docker_modules/{nf_modules => }/Trimmomatic/0.36/Dockerfile   | 0
 .../{nf_modules => }/Trimmomatic/0.36/docker_init.sh              | 0
 src/docker_modules/{nf_modules => }/UrQt/d62c1f8/Dockerfile       | 0
 src/docker_modules/{nf_modules => }/UrQt/d62c1f8/docker_init.sh   | 0
 src/docker_modules/{nf_modules => }/UrQt/tests/tests.sh           | 0
 src/docker_modules/{nf_modules => }/UrQt/tests/trimming_paired.nf | 0
 src/docker_modules/{nf_modules => }/UrQt/tests/trimming_single.nf | 0
 src/docker_modules/{nf_modules => }/UrQt/urqt.config              | 0
 src/docker_modules/{nf_modules => }/UrQt/urqt.nf                  | 0
 src/docker_modules/{nf_modules => }/canu/1.6/Dockerfile           | 0
 src/docker_modules/{nf_modules => }/canu/1.6/docker_init.sh       | 0
 src/docker_modules/{nf_modules => }/cutadapt/1.14/Dockerfile      | 0
 src/docker_modules/{nf_modules => }/cutadapt/1.14/docker_init.sh  | 0
 src/docker_modules/{nf_modules => }/cutadapt/cutadapt.config      | 0
 src/docker_modules/{nf_modules => }/cutadapt/cutadapt.nf          | 0
 .../{nf_modules => }/cutadapt/tests/adaptor_removal_paired.nf     | 0
 .../{nf_modules => }/cutadapt/tests/adaptor_removal_single.nf     | 0
 src/docker_modules/{nf_modules => }/cutadapt/tests/tests.sh       | 0
 .../{nf_modules => }/cutadapt/tests/trimming_paired.nf            | 0
 .../{nf_modules => }/cutadapt/tests/trimming_single.nf            | 0
 src/docker_modules/{nf_modules => }/deepTools/3.0.2/Dockerfile    | 0
 .../{nf_modules => }/deepTools/3.0.2/docker_init.sh               | 0
 src/docker_modules/{nf_modules => }/file_handle/0.1.1/Dockerfile  | 0
 .../{nf_modules => }/file_handle/0.1.1/docker_init.sh             | 0
 src/docker_modules/{nf_modules => }/pigz/2.4/Dockerfile           | 0
 src/docker_modules/{nf_modules => }/pigz/2.4/docker_init.sh       | 0
 77 files changed, 0 insertions(+), 0 deletions(-)
 rename src/docker_modules/{nf_modules => }/BEDtools/2.25.0/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/BEDtools/2.25.0/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/Bowtie2/2.3.4.1/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/Bowtie2/2.3.4.1/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/Bowtie2/bowtie2.config (100%)
 rename src/docker_modules/{nf_modules => }/Bowtie2/bowtie2.nf (100%)
 rename src/docker_modules/{nf_modules => }/Bowtie2/tests/index.nf (100%)
 rename src/docker_modules/{nf_modules => }/Bowtie2/tests/mapping_paired.nf (100%)
 rename src/docker_modules/{nf_modules => }/Bowtie2/tests/mapping_single.nf (100%)
 rename src/docker_modules/{nf_modules => }/Bowtie2/tests/tests.sh (100%)
 rename src/docker_modules/{nf_modules => }/FastQC/0.11.5/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/FastQC/0.11.5/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/HTSeq/0.8.0/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/HTSeq/0.8.0/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/HTSeq/htseq.config (100%)
 rename src/docker_modules/{nf_modules => }/HTSeq/htseq.nf (100%)
 rename src/docker_modules/{nf_modules => }/HTSeq/tests/counting.nf (100%)
 rename src/docker_modules/{nf_modules => }/HTSeq/tests/tests.sh (100%)
 rename src/docker_modules/{nf_modules => }/Kallisto/0.43.1/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/Kallisto/0.43.1/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/Kallisto/kallisto.config (100%)
 rename src/docker_modules/{nf_modules => }/Kallisto/kallisto.nf (100%)
 rename src/docker_modules/{nf_modules => }/Kallisto/tests/index.nf (100%)
 rename src/docker_modules/{nf_modules => }/Kallisto/tests/mapping_paired.nf (100%)
 rename src/docker_modules/{nf_modules => }/Kallisto/tests/mapping_single.nf (100%)
 rename src/docker_modules/{nf_modules => }/Kallisto/tests/tests.sh (100%)
 rename src/docker_modules/{nf_modules => }/MultiQC/1.0/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/MultiQC/1.0/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/RSEM/1.3.0/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/RSEM/1.3.0/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/RSEM/rsem.config (100%)
 rename src/docker_modules/{nf_modules => }/RSEM/rsem.nf (100%)
 rename src/docker_modules/{nf_modules => }/RSEM/tests/index.nf (100%)
 rename src/docker_modules/{nf_modules => }/RSEM/tests/quantification_paired.nf (100%)
 rename src/docker_modules/{nf_modules => }/RSEM/tests/quantification_single.nf (100%)
 rename src/docker_modules/{nf_modules => }/RSEM/tests/tests.sh (100%)
 rename src/docker_modules/{nf_modules => }/SAMtools/1.7/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/SAMtools/1.7/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/SAMtools/samtools.config (100%)
 rename src/docker_modules/{nf_modules => }/SAMtools/samtools.nf (100%)
 rename src/docker_modules/{nf_modules => }/SAMtools/tests/filter_bams.nf (100%)
 rename src/docker_modules/{nf_modules => }/SAMtools/tests/index_bams.nf (100%)
 rename src/docker_modules/{nf_modules => }/SAMtools/tests/sort_bams.nf (100%)
 rename src/docker_modules/{nf_modules => }/SAMtools/tests/split_bams.nf (100%)
 rename src/docker_modules/{nf_modules => }/SAMtools/tests/tests.sh (100%)
 rename src/docker_modules/{nf_modules => }/SRAtoolkit/2.8.2/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/SRAtoolkit/2.8.2/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/Salmon/0.8.2/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/Salmon/0.8.2/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/TopHat/2.1.1/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/TopHat/2.1.1/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/Trimmomatic/0.36/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/Trimmomatic/0.36/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/UrQt/d62c1f8/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/UrQt/d62c1f8/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/UrQt/tests/tests.sh (100%)
 rename src/docker_modules/{nf_modules => }/UrQt/tests/trimming_paired.nf (100%)
 rename src/docker_modules/{nf_modules => }/UrQt/tests/trimming_single.nf (100%)
 rename src/docker_modules/{nf_modules => }/UrQt/urqt.config (100%)
 rename src/docker_modules/{nf_modules => }/UrQt/urqt.nf (100%)
 rename src/docker_modules/{nf_modules => }/canu/1.6/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/canu/1.6/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/cutadapt/1.14/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/cutadapt/1.14/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/cutadapt/cutadapt.config (100%)
 rename src/docker_modules/{nf_modules => }/cutadapt/cutadapt.nf (100%)
 rename src/docker_modules/{nf_modules => }/cutadapt/tests/adaptor_removal_paired.nf (100%)
 rename src/docker_modules/{nf_modules => }/cutadapt/tests/adaptor_removal_single.nf (100%)
 rename src/docker_modules/{nf_modules => }/cutadapt/tests/tests.sh (100%)
 rename src/docker_modules/{nf_modules => }/cutadapt/tests/trimming_paired.nf (100%)
 rename src/docker_modules/{nf_modules => }/cutadapt/tests/trimming_single.nf (100%)
 rename src/docker_modules/{nf_modules => }/deepTools/3.0.2/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/deepTools/3.0.2/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/file_handle/0.1.1/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/file_handle/0.1.1/docker_init.sh (100%)
 rename src/docker_modules/{nf_modules => }/pigz/2.4/Dockerfile (100%)
 rename src/docker_modules/{nf_modules => }/pigz/2.4/docker_init.sh (100%)

diff --git a/src/docker_modules/nf_modules/BEDtools/2.25.0/Dockerfile b/src/docker_modules/BEDtools/2.25.0/Dockerfile
similarity index 100%
rename from src/docker_modules/nf_modules/BEDtools/2.25.0/Dockerfile
rename to src/docker_modules/BEDtools/2.25.0/Dockerfile
diff --git a/src/docker_modules/nf_modules/BEDtools/2.25.0/docker_init.sh b/src/docker_modules/BEDtools/2.25.0/docker_init.sh
similarity index 100%
rename from src/docker_modules/nf_modules/BEDtools/2.25.0/docker_init.sh
rename to src/docker_modules/BEDtools/2.25.0/docker_init.sh
diff --git a/src/docker_modules/nf_modules/Bowtie2/2.3.4.1/Dockerfile b/src/docker_modules/Bowtie2/2.3.4.1/Dockerfile
similarity index 100%
rename from src/docker_modules/nf_modules/Bowtie2/2.3.4.1/Dockerfile
rename to src/docker_modules/Bowtie2/2.3.4.1/Dockerfile
diff --git a/src/docker_modules/nf_modules/Bowtie2/2.3.4.1/docker_init.sh b/src/docker_modules/Bowtie2/2.3.4.1/docker_init.sh
similarity index 100%
rename from src/docker_modules/nf_modules/Bowtie2/2.3.4.1/docker_init.sh
rename to src/docker_modules/Bowtie2/2.3.4.1/docker_init.sh
diff --git a/src/docker_modules/nf_modules/Bowtie2/bowtie2.config b/src/docker_modules/Bowtie2/bowtie2.config
similarity index 100%
rename from src/docker_modules/nf_modules/Bowtie2/bowtie2.config
rename to src/docker_modules/Bowtie2/bowtie2.config
diff --git a/src/docker_modules/nf_modules/Bowtie2/bowtie2.nf b/src/docker_modules/Bowtie2/bowtie2.nf
similarity index 100%
rename from src/docker_modules/nf_modules/Bowtie2/bowtie2.nf
rename to src/docker_modules/Bowtie2/bowtie2.nf
diff --git a/src/docker_modules/nf_modules/Bowtie2/tests/index.nf b/src/docker_modules/Bowtie2/tests/index.nf
similarity index 100%
rename from src/docker_modules/nf_modules/Bowtie2/tests/index.nf
rename to src/docker_modules/Bowtie2/tests/index.nf
diff --git a/src/docker_modules/nf_modules/Bowtie2/tests/mapping_paired.nf b/src/docker_modules/Bowtie2/tests/mapping_paired.nf
similarity index 100%
rename from src/docker_modules/nf_modules/Bowtie2/tests/mapping_paired.nf
rename to src/docker_modules/Bowtie2/tests/mapping_paired.nf
diff --git a/src/docker_modules/nf_modules/Bowtie2/tests/mapping_single.nf b/src/docker_modules/Bowtie2/tests/mapping_single.nf
similarity index 100%
rename from src/docker_modules/nf_modules/Bowtie2/tests/mapping_single.nf
rename to src/docker_modules/Bowtie2/tests/mapping_single.nf
diff --git a/src/docker_modules/nf_modules/Bowtie2/tests/tests.sh b/src/docker_modules/Bowtie2/tests/tests.sh
similarity index 100%
rename from src/docker_modules/nf_modules/Bowtie2/tests/tests.sh
rename to src/docker_modules/Bowtie2/tests/tests.sh
diff --git a/src/docker_modules/nf_modules/FastQC/0.11.5/Dockerfile b/src/docker_modules/FastQC/0.11.5/Dockerfile
similarity index 100%
rename from src/docker_modules/nf_modules/FastQC/0.11.5/Dockerfile
rename to src/docker_modules/FastQC/0.11.5/Dockerfile
diff --git a/src/docker_modules/nf_modules/FastQC/0.11.5/docker_init.sh b/src/docker_modules/FastQC/0.11.5/docker_init.sh
similarity index 100%
rename from src/docker_modules/nf_modules/FastQC/0.11.5/docker_init.sh
rename to src/docker_modules/FastQC/0.11.5/docker_init.sh
diff --git a/src/docker_modules/nf_modules/HTSeq/0.8.0/Dockerfile b/src/docker_modules/HTSeq/0.8.0/Dockerfile
similarity index 100%
rename from src/docker_modules/nf_modules/HTSeq/0.8.0/Dockerfile
rename to src/docker_modules/HTSeq/0.8.0/Dockerfile
diff --git a/src/docker_modules/nf_modules/HTSeq/0.8.0/docker_init.sh b/src/docker_modules/HTSeq/0.8.0/docker_init.sh
similarity index 100%
rename from src/docker_modules/nf_modules/HTSeq/0.8.0/docker_init.sh
rename to src/docker_modules/HTSeq/0.8.0/docker_init.sh
diff --git a/src/docker_modules/nf_modules/HTSeq/htseq.config b/src/docker_modules/HTSeq/htseq.config
similarity index 100%
rename from src/docker_modules/nf_modules/HTSeq/htseq.config
rename to src/docker_modules/HTSeq/htseq.config
diff --git a/src/docker_modules/nf_modules/HTSeq/htseq.nf b/src/docker_modules/HTSeq/htseq.nf
similarity index 100%
rename from src/docker_modules/nf_modules/HTSeq/htseq.nf
rename to src/docker_modules/HTSeq/htseq.nf
diff --git a/src/docker_modules/nf_modules/HTSeq/tests/counting.nf b/src/docker_modules/HTSeq/tests/counting.nf
similarity index 100%
rename from src/docker_modules/nf_modules/HTSeq/tests/counting.nf
rename to src/docker_modules/HTSeq/tests/counting.nf
diff --git a/src/docker_modules/nf_modules/HTSeq/tests/tests.sh b/src/docker_modules/HTSeq/tests/tests.sh
similarity index 100%
rename from src/docker_modules/nf_modules/HTSeq/tests/tests.sh
rename to src/docker_modules/HTSeq/tests/tests.sh
diff --git a/src/docker_modules/nf_modules/Kallisto/0.43.1/Dockerfile b/src/docker_modules/Kallisto/0.43.1/Dockerfile
similarity index 100%
rename from src/docker_modules/nf_modules/Kallisto/0.43.1/Dockerfile
rename to src/docker_modules/Kallisto/0.43.1/Dockerfile
diff --git a/src/docker_modules/nf_modules/Kallisto/0.43.1/docker_init.sh b/src/docker_modules/Kallisto/0.43.1/docker_init.sh
similarity index 100%
rename from src/docker_modules/nf_modules/Kallisto/0.43.1/docker_init.sh
rename to src/docker_modules/Kallisto/0.43.1/docker_init.sh
diff --git a/src/docker_modules/nf_modules/Kallisto/kallisto.config b/src/docker_modules/Kallisto/kallisto.config
similarity index 100%
rename from src/docker_modules/nf_modules/Kallisto/kallisto.config
rename to src/docker_modules/Kallisto/kallisto.config
diff --git a/src/docker_modules/nf_modules/Kallisto/kallisto.nf b/src/docker_modules/Kallisto/kallisto.nf
similarity index 100%
rename from src/docker_modules/nf_modules/Kallisto/kallisto.nf
rename to src/docker_modules/Kallisto/kallisto.nf
diff --git a/src/docker_modules/nf_modules/Kallisto/tests/index.nf b/src/docker_modules/Kallisto/tests/index.nf
similarity index 100%
rename from src/docker_modules/nf_modules/Kallisto/tests/index.nf
rename to src/docker_modules/Kallisto/tests/index.nf
diff --git a/src/docker_modules/nf_modules/Kallisto/tests/mapping_paired.nf b/src/docker_modules/Kallisto/tests/mapping_paired.nf
similarity index 100%
rename from src/docker_modules/nf_modules/Kallisto/tests/mapping_paired.nf
rename to src/docker_modules/Kallisto/tests/mapping_paired.nf
diff --git a/src/docker_modules/nf_modules/Kallisto/tests/mapping_single.nf b/src/docker_modules/Kallisto/tests/mapping_single.nf
similarity index 100%
rename from src/docker_modules/nf_modules/Kallisto/tests/mapping_single.nf
rename to src/docker_modules/Kallisto/tests/mapping_single.nf
diff --git a/src/docker_modules/nf_modules/Kallisto/tests/tests.sh b/src/docker_modules/Kallisto/tests/tests.sh
similarity index 100%
rename from src/docker_modules/nf_modules/Kallisto/tests/tests.sh
rename to src/docker_modules/Kallisto/tests/tests.sh
diff --git a/src/docker_modules/nf_modules/MultiQC/1.0/Dockerfile b/src/docker_modules/MultiQC/1.0/Dockerfile
similarity index 100%
rename from src/docker_modules/nf_modules/MultiQC/1.0/Dockerfile
rename to src/docker_modules/MultiQC/1.0/Dockerfile
diff --git a/src/docker_modules/nf_modules/MultiQC/1.0/docker_init.sh b/src/docker_modules/MultiQC/1.0/docker_init.sh
similarity index 100%
rename from src/docker_modules/nf_modules/MultiQC/1.0/docker_init.sh
rename to src/docker_modules/MultiQC/1.0/docker_init.sh
diff --git a/src/docker_modules/nf_modules/RSEM/1.3.0/Dockerfile b/src/docker_modules/RSEM/1.3.0/Dockerfile
similarity index 100%
rename from src/docker_modules/nf_modules/RSEM/1.3.0/Dockerfile
rename to src/docker_modules/RSEM/1.3.0/Dockerfile
diff --git a/src/docker_modules/nf_modules/RSEM/1.3.0/docker_init.sh b/src/docker_modules/RSEM/1.3.0/docker_init.sh
similarity index 100%
rename from src/docker_modules/nf_modules/RSEM/1.3.0/docker_init.sh
rename to src/docker_modules/RSEM/1.3.0/docker_init.sh
diff --git a/src/docker_modules/nf_modules/RSEM/rsem.config b/src/docker_modules/RSEM/rsem.config
similarity index 100%
rename from src/docker_modules/nf_modules/RSEM/rsem.config
rename to src/docker_modules/RSEM/rsem.config
diff --git a/src/docker_modules/nf_modules/RSEM/rsem.nf b/src/docker_modules/RSEM/rsem.nf
similarity index 100%
rename from src/docker_modules/nf_modules/RSEM/rsem.nf
rename to src/docker_modules/RSEM/rsem.nf
diff --git a/src/docker_modules/nf_modules/RSEM/tests/index.nf b/src/docker_modules/RSEM/tests/index.nf
similarity index 100%
rename from src/docker_modules/nf_modules/RSEM/tests/index.nf
rename to src/docker_modules/RSEM/tests/index.nf
diff --git a/src/docker_modules/nf_modules/RSEM/tests/quantification_paired.nf b/src/docker_modules/RSEM/tests/quantification_paired.nf
similarity index 100%
rename from src/docker_modules/nf_modules/RSEM/tests/quantification_paired.nf
rename to src/docker_modules/RSEM/tests/quantification_paired.nf
diff --git a/src/docker_modules/nf_modules/RSEM/tests/quantification_single.nf b/src/docker_modules/RSEM/tests/quantification_single.nf
similarity index 100%
rename from src/docker_modules/nf_modules/RSEM/tests/quantification_single.nf
rename to src/docker_modules/RSEM/tests/quantification_single.nf
diff --git a/src/docker_modules/nf_modules/RSEM/tests/tests.sh b/src/docker_modules/RSEM/tests/tests.sh
similarity index 100%
rename from src/docker_modules/nf_modules/RSEM/tests/tests.sh
rename to src/docker_modules/RSEM/tests/tests.sh
diff --git a/src/docker_modules/nf_modules/SAMtools/1.7/Dockerfile b/src/docker_modules/SAMtools/1.7/Dockerfile
similarity index 100%
rename from src/docker_modules/nf_modules/SAMtools/1.7/Dockerfile
rename to src/docker_modules/SAMtools/1.7/Dockerfile
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