offtracker 2.14.4__zip → 2.14.5__zip
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- {offtracker-2.14.4/offtracker.egg-info → offtracker-2.14.5}/PKG-INFO +1 -1
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/_version.py +2 -2
- {offtracker-2.14.4 → offtracker-2.14.5/offtracker.egg-info}/PKG-INFO +1 -1
- {offtracker-2.14.4 → offtracker-2.14.5}/scripts/offtracker_config.py +2 -2
- {offtracker-2.14.4 → offtracker-2.14.5}/LICENSE.txt +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/MANIFEST.in +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/README.md +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/X_offplot.py +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/X_offtracker.py +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/X_sequence.py +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/__init__.py +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/snakefile/Snakefile_QC.smk +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/snakefile/Snakefile_offtracker.smk +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/utility/1.1_bed2fr.py +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/utility/1.3_bdg_normalize_v4.0.py +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/utility/bedGraphToBigWig +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/utility/hg38.chrom.sizes +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/utility/mm10.chrom.sizes +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/utility/offtracker_blacklist_hg38.merged.bed +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker/utility/offtracker_blacklist_mm10.merged.bed +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker.egg-info/SOURCES.txt +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker.egg-info/dependency_links.txt +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker.egg-info/requires.txt +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/offtracker.egg-info/top_level.txt +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/scripts/offtracker_analysis.py +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/scripts/offtracker_candidates.py +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/scripts/offtracker_correction.py +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/scripts/offtracker_init.py +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/scripts/offtracker_plot.py +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/scripts/offtracker_qc.py +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/setup.cfg +0 -0
- {offtracker-2.14.4 → offtracker-2.14.5}/setup.py +0 -0
|
@@ -1,4 +1,4 @@
|
|
|
1
|
-
__version__ = "2.14.
|
|
1
|
+
__version__ = "2.14.5"
|
|
2
2
|
# 2023.08.11. v1.1.0 adding a option for not normalizing the bw file
|
|
3
3
|
# 2023.10.26. v1.9.0 prerelease for v2.0
|
|
4
4
|
# 2023.10.27. v2.0.0 大更新，还没微调
|
|
@@ -47,4 +47,4 @@ __version__ = "2.14.4"
|
|
|
47
47
|
# 2025.08.09. v2.13.2 chromap + trim 参数
|
|
48
48
|
# 2025.10.05. v2.14.0 添加 threads 监控，在 offtracker_config.py 中添加 --cpu_help 选项进入互动模式，推荐 CPU 参数。
|
|
49
49
|
# 2025.10.05. v2.14.1 修正小问题。
|
|
50
|
-
# 2025.10.06. v2.14.
|
|
50
|
+
# 2025.10.06. v2.14.5 修正依赖和bug。
|
|
@@ -103,7 +103,7 @@ def main():
|
|
|
103
103
|
print('Total samples:', n_sample)
|
|
104
104
|
print('\n')
|
|
105
105
|
# 用户输入分配的最大内存和CPU线程数
|
|
106
|
-
max_memory_gb = float(input(rf"Please input the maximum memory for the program (25
|
|
106
|
+
max_memory_gb = float(input(rf"Please input the maximum memory for the program (25 - {memory_available}): "))
|
|
107
107
|
max_cpu_threads = int(input(rf"Please input the maximum CPU threads for the program (1 - {cpu_available}): "))
|
|
108
108
|
assert (max_memory_gb < memory_available)&(max_memory_gb >= 25), f'max memory must be < available memory ({memory_available} GB) and >= 25 GB, current input: {max_memory_gb} GB'
|
|
109
109
|
assert (max_cpu_threads <= cpu_available)&(max_cpu_threads >= 1), f'max CPU threads must be <= available CPU threads ({cpu_available}) and >= 1, current input: {max_cpu_threads}'
|
|
@@ -114,7 +114,7 @@ def main():
|
|
|
114
114
|
print('\n')
|
|
115
115
|
print('Assigning', max_cpu_per_task, f'CPU threads to each task. (i.e., -t {max_cpu_per_task})')
|
|
116
116
|
print('Number of parallel tasks:', max_task)
|
|
117
|
-
print(f'Please specify "--cores {total_cpu}" when formally running snakemake.')
|
|
117
|
+
print(f'Please specify "snakemake --cores {total_cpu}" when formally running snakemake.')
|
|
118
118
|
|
|
119
119
|
n_threads = max_cpu_per_task
|
|
120
120
|
else:
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
{offtracker-2.14.4 → offtracker-2.14.5}/offtracker/utility/offtracker_blacklist_hg38.merged.bed
RENAMED
|
File without changes
|
{offtracker-2.14.4 → offtracker-2.14.5}/offtracker/utility/offtracker_blacklist_mm10.merged.bed
RENAMED
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|
|
File without changes
|