diff --git a/bio-research/skills/nextflow-development/scripts/check_environment.py b/bio-research/skills/nextflow-development/scripts/check_environment.py index 2e505d5..efa5ac6 100644 --- a/bio-research/skills/nextflow-development/scripts/check_environment.py +++ b/bio-research/skills/nextflow-development/scripts/check_environment.py @@ -260,7 +260,7 @@ def check_resources() -> CheckResult: ) if result.returncode == 0: mem_gb = int(result.stdout.strip()) / (1024**3) - except: + except Exception: pass # Disk space (current directory) @@ -268,7 +268,7 @@ def check_resources() -> CheckResult: try: statvfs = os.statvfs('.') disk_gb = (statvfs.f_frsize * statvfs.f_bavail) / (1024**3) - except: + except Exception: pass details = f"CPUs: {cpu_count}, Memory: {mem_gb:.1f}GB, Disk: {disk_gb:.1f}GB available" @@ -319,7 +319,7 @@ def check_network() -> CheckResult: req = urllib.request.Request("https://hub.docker.com", headers=headers) urllib.request.urlopen(req, timeout=10) docker_hub_ok = True - except: + except Exception: docker_hub_ok = False # Try nf-core (for pipeline downloads) @@ -327,7 +327,7 @@ def check_network() -> CheckResult: req = urllib.request.Request("https://nf-co.re", headers=headers) urllib.request.urlopen(req, timeout=10) nfcore_ok = True - except: + except Exception: nfcore_ok = False if docker_hub_ok and nfcore_ok: diff --git a/bio-research/skills/nextflow-development/scripts/detect_data_type.py b/bio-research/skills/nextflow-development/scripts/detect_data_type.py index 870b064..e3acd71 100644 --- a/bio-research/skills/nextflow-development/scripts/detect_data_type.py +++ b/bio-research/skills/nextflow-development/scripts/detect_data_type.py @@ -71,7 +71,7 @@ def scan_directory(directory: str) -> Dict: try: size = os.path.getsize(os.path.join(root, filename)) info['total_size_gb'] += size / (1024**3) - except: + except Exception: pass return info