From c0f02ae9fd518d41c809c208df6002466f64b09e Mon Sep 17 00:00:00 2001
From: Blaise Li <blaise.li__git@nsup.org>
Date: Tue, 6 Oct 2020 17:05:48 +0200
Subject: [PATCH] Avoid bytes and spurious white characters.
---
smwrappers/explore_mapping_parameters/wrapper.py | 7 +++----
1 file changed, 3 insertions(+), 4 deletions(-)
diff --git a/smwrappers/explore_mapping_parameters/wrapper.py b/smwrappers/explore_mapping_parameters/wrapper.py
index 177b65d..12bf14a 100644
--- a/smwrappers/explore_mapping_parameters/wrapper.py
+++ b/smwrappers/explore_mapping_parameters/wrapper.py
@@ -56,11 +56,10 @@ echo -e "${{rate}}\\t{snakemake.params.these_settings}" >> {snakemake.params.rat
def split_on_tab(s):
- # https://stackoverflow.com/a/15095537/1878788
- return s.split(b'\t')
+ return s.strip().split("\t")
-with NamedTemporaryFile() as fastq, NamedTemporaryFile() as rates_record:
+with NamedTemporaryFile() as fastq, NamedTemporaryFile(mode="w+t") as rates_record:
snakemake.params.fastq = fastq.name
# Take the first 10000 reads from the input
# https://stackoverflow.com/a/46621920/1878788
@@ -75,7 +74,7 @@ with NamedTemporaryFile() as fastq, NamedTemporaryFile() as rates_record:
for (rate, settings)
in map(split_on_tab, rates_record))
with open(snakemake.output.mapping_params, "w") as fh:
- fh.write(f"{best_settings}\t({best_rate}%%)\n")
+ fh.write(f"{best_settings}\t({best_rate}%)\n")
if hasattr(snakemake.output, "methods"):
shell(f"cp {snakemake.input.methods} {snakemake.output.methods}")
--
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