From bfdcf56e9fe8c41de2849e5c7ad15a5f72430cd6 Mon Sep 17 00:00:00 2001 From: Laurent Modolo <laurent.modolo@ens-lyon.fr> Date: Tue, 5 Mar 2019 15:36:43 +0100 Subject: [PATCH] change tools name to lowercase --- apps/{BCFtools => bcftools}/install_1.7.sh | 0 apps/{BEDtools => bedtools}/install_2.25.0.sh | 0 apps/{Bowtie2 => bowtie2}/install_2.3.2.sh | 0 apps/{Bowtie2 => bowtie2}/install_2.3.4.1.sh | 0 apps/{CDHIT => cdhit}/install_4.6.8.sh | 0 apps/{deepTools => deeptools}/install_3.0.2.sh | 0 apps/{FastQC => fastqc}/install_0.11.5.sh | 0 apps/{GATK => gatk}/install_4.0.10.1.sh | 0 apps/{HTSeq => htseq}/install_0.8.0.sh | 0 apps/{HTSeq => htseq}/install_0.9.1.sh | 0 apps/{Kallisto => kallisto}/install_0.43.1.sh | 0 apps/{Kallisto => kallisto}/install_0.44.0.sh | 0 apps/{MultiQC => multiqc}/install_0.9.sh | 0 apps/{MultiQC => multiqc}/install_1.0.sh | 0 apps/{MUSIC => music}/install_6613c53.sh | 0 apps/{RSEM => rsem}/install_1.3.0.sh | 0 apps/{RSEM => rsem}/install_1.3.1.sh | 0 apps/{Salmon => salmon}/install_0.8.2.sh | 0 apps/{SAMtools => samtools}/install_1.5.sh | 0 apps/{SAMtools => samtools}/install_1.7.sh | 0 apps/{SRAtoolkit => sratoolkit}/install_2.8.2.sh | 0 apps/{TopHat => tophat}/install_2.1.1.sh | 0 apps/{Trimmomatic => trimmomatic}/install_0.36.sh | 0 apps/{UrQt => urqt}/install_d62c1f8.sh | 0 modulefiles/{BCFtools => bcftools}/1.7.lua | 0 modulefiles/{BEDtools => bedtools}/2.25.0.lua | 0 modulefiles/{Bowtie2 => bowtie2}/2.3.2.lua | 0 modulefiles/{Bowtie2 => bowtie2}/2.3.4.1.lua | 0 modulefiles/{CDHIT => cdhit}/4.6.8 | 0 modulefiles/{deepTools => deeptools}/3.0.2.lua | 0 modulefiles/{FastQC => fastqc}/0.11.5.lua | 0 modulefiles/{GATK => gatk}/4.0.10.1.lua | 0 modulefiles/{GCC => gcc}/4.9.4.lua | 0 modulefiles/{GCC => gcc}/5.4.0.lua | 0 modulefiles/{GCC => gcc}/6.4.0.lua | 0 modulefiles/{GCC => gcc}/7.2.0.lua | 0 modulefiles/{GCC => gcc}/default | 0 modulefiles/{HTSeq => htseq}/0.8.0.lua | 0 modulefiles/{HTSeq => htseq}/0.9.1.lua | 0 modulefiles/{Java => java}/1.7.0_21.lua | 0 modulefiles/{Java => java}/1.7.0_71.lua | 0 modulefiles/{Java => java}/1.8.0_151.lua | 0 modulefiles/{Kallisto => kallisto}/0.43.1.lua | 0 modulefiles/{Kallisto => kallisto}/0.44.0.lua | 0 modulefiles/{MACS2 => macs2}/2.1.1.20160309.lua | 0 modulefiles/{MultiQC => multiqc}/0.9 | 0 modulefiles/{MultiQC => multiqc}/1.0.lua | 0 modulefiles/{MUSIC => music}/6613c53.lua | 0 modulefiles/{Python => python}/2.7.13.lua | 0 modulefiles/{Python => python}/3.6.1.lua | 0 modulefiles/{R => r}/3.2.4.lua | 0 modulefiles/{R => r}/3.4.3.lua | 0 modulefiles/{RSEM => rsem}/1.3.0.lua | 0 modulefiles/{RSEM => rsem}/1.3.1.lua | 0 modulefiles/{Salmon => salmon}/0.8.2.lua | 0 modulefiles/{SAMtools => samtools}/1.5.lua | 0 modulefiles/{SAMtools => samtools}/1.7.lua | 0 modulefiles/{SRAtoolkit => sratoolkit}/2.8.2.lua | 0 modulefiles/{TopHat => tophat}/2.1.1.lua | 0 modulefiles/{Trimmomatic => trimmomatic}/0.37.lua | 0 modulefiles/{UrQt => urqt}/d62c1f8.lua | 0 61 files changed, 0 insertions(+), 0 deletions(-) rename apps/{BCFtools => bcftools}/install_1.7.sh (100%) rename apps/{BEDtools => bedtools}/install_2.25.0.sh (100%) rename apps/{Bowtie2 => bowtie2}/install_2.3.2.sh (100%) rename apps/{Bowtie2 => bowtie2}/install_2.3.4.1.sh (100%) rename apps/{CDHIT => cdhit}/install_4.6.8.sh (100%) rename apps/{deepTools => deeptools}/install_3.0.2.sh (100%) rename apps/{FastQC => fastqc}/install_0.11.5.sh (100%) rename apps/{GATK => gatk}/install_4.0.10.1.sh (100%) rename apps/{HTSeq => htseq}/install_0.8.0.sh (100%) rename apps/{HTSeq => htseq}/install_0.9.1.sh (100%) rename apps/{Kallisto => kallisto}/install_0.43.1.sh (100%) rename apps/{Kallisto => kallisto}/install_0.44.0.sh (100%) rename apps/{MultiQC => multiqc}/install_0.9.sh (100%) rename apps/{MultiQC => multiqc}/install_1.0.sh (100%) rename apps/{MUSIC => music}/install_6613c53.sh (100%) rename apps/{RSEM => rsem}/install_1.3.0.sh (100%) rename apps/{RSEM => rsem}/install_1.3.1.sh (100%) rename apps/{Salmon => salmon}/install_0.8.2.sh (100%) rename apps/{SAMtools => samtools}/install_1.5.sh (100%) rename apps/{SAMtools => samtools}/install_1.7.sh (100%) rename apps/{SRAtoolkit => sratoolkit}/install_2.8.2.sh (100%) rename apps/{TopHat => tophat}/install_2.1.1.sh (100%) rename apps/{Trimmomatic => trimmomatic}/install_0.36.sh (100%) rename apps/{UrQt => urqt}/install_d62c1f8.sh (100%) rename modulefiles/{BCFtools => bcftools}/1.7.lua (100%) rename modulefiles/{BEDtools => bedtools}/2.25.0.lua (100%) rename modulefiles/{Bowtie2 => bowtie2}/2.3.2.lua (100%) rename modulefiles/{Bowtie2 => bowtie2}/2.3.4.1.lua (100%) rename modulefiles/{CDHIT => cdhit}/4.6.8 (100%) rename modulefiles/{deepTools => deeptools}/3.0.2.lua (100%) rename modulefiles/{FastQC => fastqc}/0.11.5.lua (100%) rename modulefiles/{GATK => gatk}/4.0.10.1.lua (100%) rename modulefiles/{GCC => gcc}/4.9.4.lua (100%) rename modulefiles/{GCC => gcc}/5.4.0.lua (100%) rename modulefiles/{GCC => gcc}/6.4.0.lua (100%) rename modulefiles/{GCC => gcc}/7.2.0.lua (100%) rename modulefiles/{GCC => gcc}/default (100%) rename modulefiles/{HTSeq => htseq}/0.8.0.lua (100%) rename modulefiles/{HTSeq => htseq}/0.9.1.lua (100%) rename modulefiles/{Java => java}/1.7.0_21.lua (100%) rename modulefiles/{Java => java}/1.7.0_71.lua (100%) rename modulefiles/{Java => java}/1.8.0_151.lua (100%) rename modulefiles/{Kallisto => kallisto}/0.43.1.lua (100%) rename modulefiles/{Kallisto => kallisto}/0.44.0.lua (100%) rename modulefiles/{MACS2 => macs2}/2.1.1.20160309.lua (100%) rename modulefiles/{MultiQC => multiqc}/0.9 (100%) rename modulefiles/{MultiQC => multiqc}/1.0.lua (100%) rename modulefiles/{MUSIC => music}/6613c53.lua (100%) rename modulefiles/{Python => python}/2.7.13.lua (100%) rename modulefiles/{Python => python}/3.6.1.lua (100%) rename modulefiles/{R => r}/3.2.4.lua (100%) rename modulefiles/{R => r}/3.4.3.lua (100%) rename modulefiles/{RSEM => rsem}/1.3.0.lua (100%) rename modulefiles/{RSEM => rsem}/1.3.1.lua (100%) rename modulefiles/{Salmon => salmon}/0.8.2.lua (100%) rename modulefiles/{SAMtools => samtools}/1.5.lua (100%) rename modulefiles/{SAMtools => samtools}/1.7.lua (100%) rename modulefiles/{SRAtoolkit => sratoolkit}/2.8.2.lua (100%) rename modulefiles/{TopHat => tophat}/2.1.1.lua (100%) rename modulefiles/{Trimmomatic => trimmomatic}/0.37.lua (100%) rename modulefiles/{UrQt => urqt}/d62c1f8.lua (100%) diff --git a/apps/BCFtools/install_1.7.sh b/apps/bcftools/install_1.7.sh similarity index 100% rename from apps/BCFtools/install_1.7.sh rename to apps/bcftools/install_1.7.sh diff --git a/apps/BEDtools/install_2.25.0.sh b/apps/bedtools/install_2.25.0.sh similarity index 100% rename from apps/BEDtools/install_2.25.0.sh rename to apps/bedtools/install_2.25.0.sh diff --git a/apps/Bowtie2/install_2.3.2.sh b/apps/bowtie2/install_2.3.2.sh similarity index 100% rename from apps/Bowtie2/install_2.3.2.sh rename to apps/bowtie2/install_2.3.2.sh diff --git a/apps/Bowtie2/install_2.3.4.1.sh b/apps/bowtie2/install_2.3.4.1.sh similarity index 100% rename from apps/Bowtie2/install_2.3.4.1.sh rename to apps/bowtie2/install_2.3.4.1.sh diff --git a/apps/CDHIT/install_4.6.8.sh b/apps/cdhit/install_4.6.8.sh similarity index 100% rename from apps/CDHIT/install_4.6.8.sh rename to apps/cdhit/install_4.6.8.sh diff --git a/apps/deepTools/install_3.0.2.sh b/apps/deeptools/install_3.0.2.sh similarity index 100% rename from apps/deepTools/install_3.0.2.sh rename to apps/deeptools/install_3.0.2.sh diff --git a/apps/FastQC/install_0.11.5.sh b/apps/fastqc/install_0.11.5.sh similarity index 100% rename from apps/FastQC/install_0.11.5.sh rename to apps/fastqc/install_0.11.5.sh diff --git a/apps/GATK/install_4.0.10.1.sh b/apps/gatk/install_4.0.10.1.sh similarity index 100% rename from apps/GATK/install_4.0.10.1.sh rename to apps/gatk/install_4.0.10.1.sh diff --git a/apps/HTSeq/install_0.8.0.sh b/apps/htseq/install_0.8.0.sh similarity index 100% rename from apps/HTSeq/install_0.8.0.sh rename to apps/htseq/install_0.8.0.sh diff --git a/apps/HTSeq/install_0.9.1.sh b/apps/htseq/install_0.9.1.sh similarity index 100% rename from apps/HTSeq/install_0.9.1.sh rename to apps/htseq/install_0.9.1.sh diff --git a/apps/Kallisto/install_0.43.1.sh b/apps/kallisto/install_0.43.1.sh similarity index 100% rename from apps/Kallisto/install_0.43.1.sh rename to apps/kallisto/install_0.43.1.sh diff --git a/apps/Kallisto/install_0.44.0.sh b/apps/kallisto/install_0.44.0.sh similarity index 100% rename from apps/Kallisto/install_0.44.0.sh rename to apps/kallisto/install_0.44.0.sh diff --git a/apps/MultiQC/install_0.9.sh b/apps/multiqc/install_0.9.sh similarity index 100% rename from apps/MultiQC/install_0.9.sh rename to apps/multiqc/install_0.9.sh diff --git a/apps/MultiQC/install_1.0.sh b/apps/multiqc/install_1.0.sh similarity index 100% rename from apps/MultiQC/install_1.0.sh rename to apps/multiqc/install_1.0.sh diff --git a/apps/MUSIC/install_6613c53.sh b/apps/music/install_6613c53.sh similarity index 100% rename from apps/MUSIC/install_6613c53.sh rename to apps/music/install_6613c53.sh diff --git a/apps/RSEM/install_1.3.0.sh b/apps/rsem/install_1.3.0.sh similarity index 100% rename from apps/RSEM/install_1.3.0.sh rename to apps/rsem/install_1.3.0.sh diff --git a/apps/RSEM/install_1.3.1.sh b/apps/rsem/install_1.3.1.sh similarity index 100% rename from apps/RSEM/install_1.3.1.sh rename to apps/rsem/install_1.3.1.sh diff --git a/apps/Salmon/install_0.8.2.sh b/apps/salmon/install_0.8.2.sh similarity index 100% rename from apps/Salmon/install_0.8.2.sh rename to apps/salmon/install_0.8.2.sh diff --git a/apps/SAMtools/install_1.5.sh b/apps/samtools/install_1.5.sh similarity index 100% rename from apps/SAMtools/install_1.5.sh rename to apps/samtools/install_1.5.sh diff --git a/apps/SAMtools/install_1.7.sh b/apps/samtools/install_1.7.sh similarity index 100% rename from apps/SAMtools/install_1.7.sh rename to apps/samtools/install_1.7.sh diff --git a/apps/SRAtoolkit/install_2.8.2.sh b/apps/sratoolkit/install_2.8.2.sh similarity index 100% rename from apps/SRAtoolkit/install_2.8.2.sh rename to apps/sratoolkit/install_2.8.2.sh diff --git a/apps/TopHat/install_2.1.1.sh b/apps/tophat/install_2.1.1.sh similarity index 100% rename from apps/TopHat/install_2.1.1.sh rename to apps/tophat/install_2.1.1.sh diff --git a/apps/Trimmomatic/install_0.36.sh b/apps/trimmomatic/install_0.36.sh similarity index 100% rename from apps/Trimmomatic/install_0.36.sh rename to apps/trimmomatic/install_0.36.sh diff --git a/apps/UrQt/install_d62c1f8.sh b/apps/urqt/install_d62c1f8.sh similarity index 100% rename from apps/UrQt/install_d62c1f8.sh rename to apps/urqt/install_d62c1f8.sh diff --git a/modulefiles/BCFtools/1.7.lua b/modulefiles/bcftools/1.7.lua similarity index 100% rename from modulefiles/BCFtools/1.7.lua rename to modulefiles/bcftools/1.7.lua diff --git a/modulefiles/BEDtools/2.25.0.lua b/modulefiles/bedtools/2.25.0.lua similarity index 100% rename from modulefiles/BEDtools/2.25.0.lua rename to modulefiles/bedtools/2.25.0.lua diff --git a/modulefiles/Bowtie2/2.3.2.lua b/modulefiles/bowtie2/2.3.2.lua similarity index 100% rename from modulefiles/Bowtie2/2.3.2.lua rename to modulefiles/bowtie2/2.3.2.lua diff --git a/modulefiles/Bowtie2/2.3.4.1.lua b/modulefiles/bowtie2/2.3.4.1.lua similarity index 100% rename from modulefiles/Bowtie2/2.3.4.1.lua rename to modulefiles/bowtie2/2.3.4.1.lua diff --git a/modulefiles/CDHIT/4.6.8 b/modulefiles/cdhit/4.6.8 similarity index 100% rename from modulefiles/CDHIT/4.6.8 rename to modulefiles/cdhit/4.6.8 diff --git a/modulefiles/deepTools/3.0.2.lua b/modulefiles/deeptools/3.0.2.lua similarity index 100% rename from modulefiles/deepTools/3.0.2.lua rename to modulefiles/deeptools/3.0.2.lua diff --git a/modulefiles/FastQC/0.11.5.lua b/modulefiles/fastqc/0.11.5.lua similarity index 100% rename from modulefiles/FastQC/0.11.5.lua rename to modulefiles/fastqc/0.11.5.lua diff --git a/modulefiles/GATK/4.0.10.1.lua b/modulefiles/gatk/4.0.10.1.lua similarity index 100% rename from modulefiles/GATK/4.0.10.1.lua rename to modulefiles/gatk/4.0.10.1.lua diff --git a/modulefiles/GCC/4.9.4.lua b/modulefiles/gcc/4.9.4.lua similarity index 100% rename from modulefiles/GCC/4.9.4.lua rename to modulefiles/gcc/4.9.4.lua diff --git a/modulefiles/GCC/5.4.0.lua b/modulefiles/gcc/5.4.0.lua similarity index 100% rename from modulefiles/GCC/5.4.0.lua rename to modulefiles/gcc/5.4.0.lua diff --git a/modulefiles/GCC/6.4.0.lua b/modulefiles/gcc/6.4.0.lua similarity index 100% rename from modulefiles/GCC/6.4.0.lua rename to modulefiles/gcc/6.4.0.lua diff --git a/modulefiles/GCC/7.2.0.lua b/modulefiles/gcc/7.2.0.lua similarity index 100% rename from modulefiles/GCC/7.2.0.lua rename to modulefiles/gcc/7.2.0.lua diff --git a/modulefiles/GCC/default b/modulefiles/gcc/default similarity index 100% rename from modulefiles/GCC/default rename to modulefiles/gcc/default diff --git a/modulefiles/HTSeq/0.8.0.lua b/modulefiles/htseq/0.8.0.lua similarity index 100% rename from modulefiles/HTSeq/0.8.0.lua rename to modulefiles/htseq/0.8.0.lua diff --git a/modulefiles/HTSeq/0.9.1.lua b/modulefiles/htseq/0.9.1.lua similarity index 100% rename from modulefiles/HTSeq/0.9.1.lua rename to modulefiles/htseq/0.9.1.lua diff --git a/modulefiles/Java/1.7.0_21.lua b/modulefiles/java/1.7.0_21.lua similarity index 100% rename from modulefiles/Java/1.7.0_21.lua rename to modulefiles/java/1.7.0_21.lua diff --git a/modulefiles/Java/1.7.0_71.lua b/modulefiles/java/1.7.0_71.lua similarity index 100% rename from modulefiles/Java/1.7.0_71.lua rename to modulefiles/java/1.7.0_71.lua diff --git a/modulefiles/Java/1.8.0_151.lua b/modulefiles/java/1.8.0_151.lua similarity index 100% rename from modulefiles/Java/1.8.0_151.lua rename to modulefiles/java/1.8.0_151.lua diff --git a/modulefiles/Kallisto/0.43.1.lua b/modulefiles/kallisto/0.43.1.lua similarity index 100% rename from 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a/modulefiles/Python/2.7.13.lua b/modulefiles/python/2.7.13.lua similarity index 100% rename from modulefiles/Python/2.7.13.lua rename to modulefiles/python/2.7.13.lua diff --git a/modulefiles/Python/3.6.1.lua b/modulefiles/python/3.6.1.lua similarity index 100% rename from modulefiles/Python/3.6.1.lua rename to modulefiles/python/3.6.1.lua diff --git a/modulefiles/R/3.2.4.lua b/modulefiles/r/3.2.4.lua similarity index 100% rename from modulefiles/R/3.2.4.lua rename to modulefiles/r/3.2.4.lua diff --git a/modulefiles/R/3.4.3.lua b/modulefiles/r/3.4.3.lua similarity index 100% rename from modulefiles/R/3.4.3.lua rename to modulefiles/r/3.4.3.lua diff --git a/modulefiles/RSEM/1.3.0.lua b/modulefiles/rsem/1.3.0.lua similarity index 100% rename from modulefiles/RSEM/1.3.0.lua rename to modulefiles/rsem/1.3.0.lua diff --git a/modulefiles/RSEM/1.3.1.lua b/modulefiles/rsem/1.3.1.lua similarity index 100% rename from modulefiles/RSEM/1.3.1.lua rename to modulefiles/rsem/1.3.1.lua diff --git a/modulefiles/Salmon/0.8.2.lua b/modulefiles/salmon/0.8.2.lua similarity index 100% rename from modulefiles/Salmon/0.8.2.lua rename to modulefiles/salmon/0.8.2.lua diff --git a/modulefiles/SAMtools/1.5.lua b/modulefiles/samtools/1.5.lua similarity index 100% rename from modulefiles/SAMtools/1.5.lua rename to modulefiles/samtools/1.5.lua diff --git a/modulefiles/SAMtools/1.7.lua b/modulefiles/samtools/1.7.lua similarity index 100% rename from modulefiles/SAMtools/1.7.lua rename to modulefiles/samtools/1.7.lua diff --git a/modulefiles/SRAtoolkit/2.8.2.lua b/modulefiles/sratoolkit/2.8.2.lua similarity index 100% rename from modulefiles/SRAtoolkit/2.8.2.lua rename to modulefiles/sratoolkit/2.8.2.lua diff --git a/modulefiles/TopHat/2.1.1.lua b/modulefiles/tophat/2.1.1.lua similarity index 100% rename from modulefiles/TopHat/2.1.1.lua rename to modulefiles/tophat/2.1.1.lua diff --git a/modulefiles/Trimmomatic/0.37.lua b/modulefiles/trimmomatic/0.37.lua similarity index 100% rename from modulefiles/Trimmomatic/0.37.lua rename to modulefiles/trimmomatic/0.37.lua diff --git a/modulefiles/UrQt/d62c1f8.lua b/modulefiles/urqt/d62c1f8.lua similarity index 100% rename from modulefiles/UrQt/d62c1f8.lua rename to modulefiles/urqt/d62c1f8.lua -- GitLab