From 05042bc79b0b52e63af5c3d3c50f69f8587a0c13 Mon Sep 17 00:00:00 2001
From: Kenzo-Hugo Hillion <hillion.kenzo@gmail.com>
Date: Tue, 20 Jul 2021 10:34:44 +0200
Subject: [PATCH] file rights

---
 .workflow-index.yml                                     | 0
 README.md                                               | 0
 subworkflows/README.md                                  | 0
 subworkflows/graphlan_from_metaphlan2/Snakefile         | 0
 tools/README.md                                         | 0
 tools/eggnogmapper2/annotate/Snakefile                  | 0
 tools/eggnogmapper2/annotate/example_usage/Snakefile    | 0
 tools/eggnogmapper2/annotate/example_usage/config.yaml  | 0
 tools/eggnogmapper2/diamond/Snakefile                   | 0
 tools/eggnogmapper2/diamond/example_usage/Snakefile     | 0
 tools/eggnogmapper2/diamond/example_usage/config.yaml   | 0
 tools/graphlan/export2graphlan/Snakefile                | 0
 tools/graphlan/graphlan/Snakefile                       | 0
 tools/graphlan/graphlan_annotate/Snakefile              | 0
 tools/metaphlan2/metaphlan2/paired/Snakefile            | 0
 tools/metaphlan2/metaphlan2/paired/config_example.yaml  | 0
 tools/metaphlan2/metaphlan2/single/Snakefile            | 0
 tools/metaphlan2/metaphlan2/single/config_example.yaml  | 0
 tools/metaphlan2/metaphlan2_heatmap/Snakefile           | 0
 tools/metaphlan2/metaphlan2_heatmap/config.yaml         | 0
 tools/metaphlan2/metaphlan2_heatmap/usage_example.rules | 0
 tools/metaphlan2/metaphlan2_merge/Snakefile             | 0
 tools/metaphlan2/metaphlan2_merge/config.yaml           | 0
 tools/metaphlan2/metaphlan2_merge/usage_example.rules   | 0
 tools/metaphlan3/metaphlan/paired/Snakefile             | 0
 tools/metaphlan3/metaphlan/paired/config_example.yaml   | 0
 tools/metaphlan3/metaphlan/single/Snakefile             | 0
 tools/metaphlan3/metaphlan/single/config_example.yaml   | 0
 tools/strainphlan/extract_markers/README.md             | 0
 tools/strainphlan/sample2markers/README.md              | 0
 tools/strainphlan/sample2markers/Snakefile              | 0
 tools/strainphlan/sample2markers/config.yaml            | 0
 tools/strainphlan/strainphlan/README.md                 | 0
 tools/strainphlan/strainphlan/Snakefile                 | 0
 tools/strainphlan/strainphlan/config.yaml               | 0
 tools/utils/cat/Snakefile                               | 0
 tools/utils/cat/example_usage/Snakefile                 | 0
 tools/utils/cat/example_usage/config.yaml               | 0
 tools/utils/split_fasta/Snakefile                       | 0
 tools/utils/split_fasta/example_usage/Snakefile         | 0
 tools/utils/split_fasta/example_usage/config.yaml       | 0
 workflows/README.md                                     | 0
 workflows/cluster.yml                                   | 0
 workflows/eggnogmapperv2/README.md                      | 0
 workflows/eggnogmapperv2/Snakefile                      | 0
 workflows/eggnogmapperv2/config.yaml                    | 0
 workflows/metaphlan2/README.md                          | 0
 workflows/metaphlan2/paired_metaphlan2/Snakefile        | 0
 workflows/metaphlan2/paired_metaphlan2/config.yaml      | 0
 workflows/metaphlan2/single_metaphlan2/Snakefile        | 0
 workflows/metaphlan2/single_metaphlan2/config.yaml      | 0
 workflows/metaphlan3/README.md                          | 0
 workflows/metaphlan3/paired_metaphlan2/Snakefile        | 0
 workflows/metaphlan3/paired_metaphlan2/config.yaml      | 0
 workflows/strainphlan/README.md                         | 0
 workflows/strainphlan/Snakefile                         | 0
 workflows/strainphlan/config.yaml                       | 0
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 mode change 100644 => 100755 tools/graphlan/graphlan_annotate/Snakefile
 mode change 100644 => 100755 tools/metaphlan2/metaphlan2/paired/Snakefile
 mode change 100644 => 100755 tools/metaphlan2/metaphlan2/paired/config_example.yaml
 mode change 100644 => 100755 tools/metaphlan2/metaphlan2/single/Snakefile
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 mode change 100644 => 100755 tools/metaphlan3/metaphlan/single/Snakefile
 mode change 100644 => 100755 tools/metaphlan3/metaphlan/single/config_example.yaml
 mode change 100644 => 100755 tools/strainphlan/extract_markers/README.md
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 mode change 100644 => 100755 workflows/README.md
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 mode change 100644 => 100755 workflows/strainphlan/README.md
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 mode change 100644 => 100755 workflows/strainphlan/config.yaml

diff --git a/.workflow-index.yml b/.workflow-index.yml
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diff --git a/README.md b/README.md
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diff --git a/subworkflows/README.md b/subworkflows/README.md
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diff --git a/subworkflows/graphlan_from_metaphlan2/Snakefile b/subworkflows/graphlan_from_metaphlan2/Snakefile
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diff --git a/tools/README.md b/tools/README.md
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diff --git a/tools/eggnogmapper2/annotate/Snakefile b/tools/eggnogmapper2/annotate/Snakefile
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diff --git a/tools/eggnogmapper2/annotate/example_usage/Snakefile b/tools/eggnogmapper2/annotate/example_usage/Snakefile
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diff --git a/tools/eggnogmapper2/annotate/example_usage/config.yaml b/tools/eggnogmapper2/annotate/example_usage/config.yaml
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diff --git a/tools/eggnogmapper2/diamond/Snakefile b/tools/eggnogmapper2/diamond/Snakefile
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diff --git a/tools/eggnogmapper2/diamond/example_usage/Snakefile b/tools/eggnogmapper2/diamond/example_usage/Snakefile
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diff --git a/tools/eggnogmapper2/diamond/example_usage/config.yaml b/tools/eggnogmapper2/diamond/example_usage/config.yaml
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diff --git a/tools/graphlan/export2graphlan/Snakefile b/tools/graphlan/export2graphlan/Snakefile
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diff --git a/tools/graphlan/graphlan/Snakefile b/tools/graphlan/graphlan/Snakefile
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diff --git a/tools/graphlan/graphlan_annotate/Snakefile b/tools/graphlan/graphlan_annotate/Snakefile
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diff --git a/tools/metaphlan2/metaphlan2/paired/Snakefile b/tools/metaphlan2/metaphlan2/paired/Snakefile
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diff --git a/tools/metaphlan2/metaphlan2/paired/config_example.yaml b/tools/metaphlan2/metaphlan2/paired/config_example.yaml
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diff --git a/tools/metaphlan2/metaphlan2/single/Snakefile b/tools/metaphlan2/metaphlan2/single/Snakefile
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diff --git a/tools/metaphlan2/metaphlan2/single/config_example.yaml b/tools/metaphlan2/metaphlan2/single/config_example.yaml
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diff --git a/tools/metaphlan2/metaphlan2_heatmap/Snakefile b/tools/metaphlan2/metaphlan2_heatmap/Snakefile
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diff --git a/tools/metaphlan2/metaphlan2_heatmap/config.yaml b/tools/metaphlan2/metaphlan2_heatmap/config.yaml
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diff --git a/tools/metaphlan2/metaphlan2_heatmap/usage_example.rules b/tools/metaphlan2/metaphlan2_heatmap/usage_example.rules
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diff --git a/tools/metaphlan2/metaphlan2_merge/Snakefile b/tools/metaphlan2/metaphlan2_merge/Snakefile
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diff --git a/tools/metaphlan2/metaphlan2_merge/config.yaml b/tools/metaphlan2/metaphlan2_merge/config.yaml
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diff --git a/tools/metaphlan2/metaphlan2_merge/usage_example.rules b/tools/metaphlan2/metaphlan2_merge/usage_example.rules
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diff --git a/tools/metaphlan3/metaphlan/paired/Snakefile b/tools/metaphlan3/metaphlan/paired/Snakefile
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diff --git a/tools/metaphlan3/metaphlan/paired/config_example.yaml b/tools/metaphlan3/metaphlan/paired/config_example.yaml
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diff --git a/tools/metaphlan3/metaphlan/single/Snakefile b/tools/metaphlan3/metaphlan/single/Snakefile
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diff --git a/tools/metaphlan3/metaphlan/single/config_example.yaml b/tools/metaphlan3/metaphlan/single/config_example.yaml
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diff --git a/tools/strainphlan/extract_markers/README.md b/tools/strainphlan/extract_markers/README.md
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diff --git a/tools/strainphlan/sample2markers/README.md b/tools/strainphlan/sample2markers/README.md
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diff --git a/tools/strainphlan/sample2markers/Snakefile b/tools/strainphlan/sample2markers/Snakefile
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diff --git a/tools/strainphlan/sample2markers/config.yaml b/tools/strainphlan/sample2markers/config.yaml
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diff --git a/tools/strainphlan/strainphlan/README.md b/tools/strainphlan/strainphlan/README.md
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diff --git a/tools/strainphlan/strainphlan/Snakefile b/tools/strainphlan/strainphlan/Snakefile
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diff --git a/tools/strainphlan/strainphlan/config.yaml b/tools/strainphlan/strainphlan/config.yaml
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diff --git a/tools/utils/cat/Snakefile b/tools/utils/cat/Snakefile
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diff --git a/tools/utils/cat/example_usage/Snakefile b/tools/utils/cat/example_usage/Snakefile
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diff --git a/tools/utils/cat/example_usage/config.yaml b/tools/utils/cat/example_usage/config.yaml
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diff --git a/tools/utils/split_fasta/Snakefile b/tools/utils/split_fasta/Snakefile
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diff --git a/tools/utils/split_fasta/example_usage/Snakefile b/tools/utils/split_fasta/example_usage/Snakefile
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diff --git a/tools/utils/split_fasta/example_usage/config.yaml b/tools/utils/split_fasta/example_usage/config.yaml
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diff --git a/workflows/README.md b/workflows/README.md
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diff --git a/workflows/cluster.yml b/workflows/cluster.yml
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diff --git a/workflows/eggnogmapperv2/README.md b/workflows/eggnogmapperv2/README.md
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diff --git a/workflows/eggnogmapperv2/Snakefile b/workflows/eggnogmapperv2/Snakefile
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diff --git a/workflows/eggnogmapperv2/config.yaml b/workflows/eggnogmapperv2/config.yaml
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diff --git a/workflows/metaphlan2/README.md b/workflows/metaphlan2/README.md
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diff --git a/workflows/metaphlan2/paired_metaphlan2/Snakefile b/workflows/metaphlan2/paired_metaphlan2/Snakefile
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diff --git a/workflows/metaphlan2/paired_metaphlan2/config.yaml b/workflows/metaphlan2/paired_metaphlan2/config.yaml
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diff --git a/workflows/metaphlan2/single_metaphlan2/Snakefile b/workflows/metaphlan2/single_metaphlan2/Snakefile
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diff --git a/workflows/metaphlan2/single_metaphlan2/config.yaml b/workflows/metaphlan2/single_metaphlan2/config.yaml
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diff --git a/workflows/metaphlan3/README.md b/workflows/metaphlan3/README.md
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diff --git a/workflows/metaphlan3/paired_metaphlan2/Snakefile b/workflows/metaphlan3/paired_metaphlan2/Snakefile
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diff --git a/workflows/metaphlan3/paired_metaphlan2/config.yaml b/workflows/metaphlan3/paired_metaphlan2/config.yaml
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diff --git a/workflows/strainphlan/README.md b/workflows/strainphlan/README.md
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diff --git a/workflows/strainphlan/Snakefile b/workflows/strainphlan/Snakefile
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diff --git a/workflows/strainphlan/config.yaml b/workflows/strainphlan/config.yaml
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