From a67cbb482de7d7ad8ccfc8e6e348e566be6fcb3a Mon Sep 17 00:00:00 2001
From: Blaise Li <blaise.li__git@nsup.org>
Date: Mon, 5 Oct 2020 22:26:27 +0200
Subject: [PATCH] Trying another way to dynamically set params.
---
smwrappers/explore_mapping_parameters/wrapper.py | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/smwrappers/explore_mapping_parameters/wrapper.py b/smwrappers/explore_mapping_parameters/wrapper.py
index 334d0b5..90277fa 100644
--- a/smwrappers/explore_mapping_parameters/wrapper.py
+++ b/smwrappers/explore_mapping_parameters/wrapper.py
@@ -55,12 +55,12 @@ echo -e "${{rate}}\\t{snakemake.params.these_settings}" >> {snakemake.params.rat
return shell_commands
with NamedTemporaryFile() as fastq, NamedTemporaryFile() as rates_record:
- snakemake.params["fastq"] = fastq.name
+ snakemake.params.fastq = fastq.name
# Take the first 10000 reads from the input
shell(f"zcat {snakemake.input.fastq} | head -40000 | gzip > {fastq.name}")
- snakemake.params["rates_record"] = rates_record.name
+ snakemake.params.rates_record = rates_record.name
for settings in snakemake.params.settings:
- snakemake.params["these_settings"] = settings
+ snakemake.params.these_settings = settings
shell(mapping_command(snakemake.params.aligner))
rates_record.seek(0)
(best_rate, best_settings) = max(
--
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