Add resources tokens for downlowd rules

guillaumecharbonnier · Jan 25, 2024 · 7144bcd · 7144bcd
1 parent 2076e60
commit 7144bcd
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diff --git a/src/snakemake/rules/sra-tools.smk b/src/snakemake/rules/sra-tools.smk
@@ -28,6 +28,8 @@ rule sra_tools_fastq_dump_se_extra:
         ext="fastq|fastq.gz"
     conda:
         "../envs/sra-tools.yaml"
+    resources:
+        fastqdump_token=1
     threads:
         1
     shell:
@@ -66,6 +68,8 @@ rule sra_tools_fastq_dump_pe_extra:
         "../envs/sra-tools.yaml"
     threads:
         1
+    resources:
+        fastqdump_token=1
     shell:
         "fastq-dump --split-files {params} --outdir `dirname {output[0]}` {wildcards.srr}"
 

diff --git a/src/snakemake/rules/wget.smk b/src/snakemake/rules/wget.smk
@@ -37,6 +37,8 @@ rule wget_protocol_extra:
     wildcard_constraints:
         tool="wget/",
         protocol="http|https|ftp"
+    resources:
+        wget_token=1
     shell:
         "wget {params.extra} --output-file={log} --output-document={output} {wildcards.protocol}://{wildcards.path}"
 
@@ -66,5 +68,7 @@ rule wget_extra:
         "../envs/wget.yaml"
     wildcard_constraints:
         tool="wget/"
+    resources:
+        wget_token=1
     shell:
         "wget --output-file={log} --output-document={output} {params.extra}"