diff --git a/workflow/rules/common.smk b/workflow/rules/common.smk index 52fac0f..e6b7ad0 100644 --- a/workflow/rules/common.smk +++ b/workflow/rules/common.smk @@ -260,7 +260,7 @@ def get_stains(wildcards): # bigstitcher def get_fiji_launcher_cmd(wildcards, output, threads, resources): launcher_opts_find = "-Xincgc" - launcher_opts_replace = f"-XX:+UseG1GC -verbose:gc -XX:+PrintGCDateStamps -XX:ActiveProcessorCount={threads} -XX:ParallelGCThreads={int(threads/2)} -XX:ConcGCThreads={int(threads/4)}" + launcher_opts_replace = f"-XX:+UseG1GC -verbose:gc -XX:+PrintGCDateStamps -XX:ActiveProcessorCount={threads}" pipe_cmds = [] pipe_cmds.append("ImageJ-linux64 --dry-run --headless --console") pipe_cmds.append(f"sed 's/{launcher_opts_find}/{launcher_opts_replace}'/")