offtracker 2.14.2__zip → 2.14.4__zip

{offtracker-2.14.2/offtracker.egg-info → offtracker-2.14.4}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: offtracker
-Version: 2.14.2
+Version: 2.14.4
 Summary: Tracking-seq data analysis
 Home-page: https://github.com/Lan-lab/offtracker
 Author: Runda Xu

{offtracker-2.14.2 → offtracker-2.14.4}/offtracker/_version.py

@@ -1,4 +1,4 @@
-__version__ = "2.14.2"
+__version__ = "2.14.4"
 # 2023.08.11. v1.1.0	adding a option for not normalizing the bw file
 # 2023.10.26. v1.9.0	prerelease for v2.0
 # 2023.10.27. v2.0.0	大更新，还没微调
@@ -47,4 +47,4 @@ __version__ = "2.14.2"
 # 2025.08.09. v2.13.2	chromap + trim 参数
 # 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。
 # 2025.10.05. v2.14.1	修正小问题。
-# 2025.10.06. v2.14.2	修正依赖。
+# 2025.10.06. v2.14.4	修正依赖和bug。

{offtracker-2.14.2 → offtracker-2.14.4/offtracker.egg-info}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: offtracker
-Version: 2.14.2
+Version: 2.14.4
 Summary: Tracking-seq data analysis
 Home-page: https://github.com/Lan-lab/offtracker
 Author: Runda Xu

{offtracker-2.14.2 → offtracker-2.14.4}/offtracker.egg-info/requires.txt

@@ -5,16 +5,6 @@ scipy
 matplotlib
 biopython<=1.85
 pybedtools
+pyarrow
 pyyaml
 psutil
-os
-sys
-re
-glob
-time
-itertools
-argparse
-multiprocessing
-shutil
-yaml
-math

{offtracker-2.14.2 → offtracker-2.14.4}/scripts/offtracker_analysis.py

@@ -400,7 +400,7 @@ def main():
         # 2025.06.05. BE可能会形成单边信号，但是很少见，如果 control 用的是别的 sgRNA 的样本，对应脱靶位置附近一般就是负数
         # bool_neg_score = df_result['track_score']< -1
         df_output = df_result[bool_fdr|bool_score].copy()
-        df_output = df_output['track_score']>1.75
+        df_output = df_output[df_output['track_score']>1.75].copy()
         if pattern_ctr != 'none':
             df_output = df_output[['target_location', 'best_strand','best_target','deletion','insertion','mismatch',
                                 'exp_L_length', 'exp_R_length','ctr_L_length','ctr_R_length','L_length','R_length','signal_length',

{offtracker-2.14.2 → offtracker-2.14.4}/scripts/offtracker_config.py

@@ -103,8 +103,8 @@ def main():
         print('Total samples:', n_sample)
         print('\n')
         # 用户输入分配的最大内存和CPU线程数
-        max_memory_gb = float(input(rf"Please input the maximum memory for the program (GB): 25 - {memory_available}\n"))
-        max_cpu_threads = int(input(rf"Please input the maximum CPU threads for the program: 1 - {cpu_available}\n"))
+        max_memory_gb = float(input(rf"Please input the maximum memory for the program (25 GB - {memory_available} GB): "))
+        max_cpu_threads = int(input(rf"Please input the maximum CPU threads for the program (1 - {cpu_available}): "))
         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'
         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}'
         # 计算推荐的 cpu 参数

{offtracker-2.14.2 → offtracker-2.14.4}/setup.py

@@ -26,8 +26,8 @@ with open(os.path.join(here, package_folder, '_version.py'),'r',encoding='utf-8'
 
 # requirements
 REQUIRED = [
-   'pandas', 'polars>=1.19.0', 'numpy', 'scipy', 'matplotlib', 'biopython<=1.85', 'pybedtools', 'pyyaml', 'psutil',
-   'os','sys','re', 'glob', 'time','itertools','argparse', 'multiprocessing', 'shutil', 'yaml', 'math'
+   'pandas', 'polars>=1.19.0', 'numpy', 'scipy', 'matplotlib', 'biopython<=1.85', 'pybedtools', 'pyarrow', 'pyyaml', 'psutil',
+   # 'os','sys','re', 'glob', 'time','itertools','argparse', 'multiprocessing', 'shutil', 'yaml', 'math'
 ]
 ## pybedtools may be not supported in Windows