From e986d12487fd52b97a786a3572866bba762532f9 Mon Sep 17 00:00:00 2001 From: Till Hartmann Date: Fri, 13 Dec 2024 16:26:40 +0100 Subject: [PATCH] use RScript instead of R --- snappy_wrappers/snappy_wrapper.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/snappy_wrappers/snappy_wrapper.py b/snappy_wrappers/snappy_wrapper.py index 2c10c2f6..9e6e9bdb 100644 --- a/snappy_wrappers/snappy_wrapper.py +++ b/snappy_wrappers/snappy_wrapper.py @@ -163,7 +163,7 @@ def _run_R(self, cmd: str) -> None: with open(self._snakemake.log.script, "wt") as f: print(cmd, file=f) shell(SnappyWrapper.md5_log.format(log=self._snakemake.log.script)) - self._run(f"R --vanilla < {self._snakemake.log.script}", None) + self._run(f"Rscript --vanilla {self._snakemake.log.script}", None) def run(self, cmd: str) -> None: self._run_R(cmd)