Job ID = 6626616 SRX = SRX5734953 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:07:17 18475432 reads; of these: 18475432 (100.00%) were unpaired; of these: 1799828 (9.74%) aligned 0 times 14952666 (80.93%) aligned exactly 1 time 1722938 (9.33%) aligned >1 times 90.26% overall alignment rate Time searching: 00:07:18 Overall time: 00:07:18 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 8229818 / 16675604 = 0.4935 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:07:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Tue, 14 Jul 2020 08:07:34: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:07:34: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:07:42: 1000000 INFO @ Tue, 14 Jul 2020 08:07:49: 2000000 INFO @ Tue, 14 Jul 2020 08:07:57: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:08:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Tue, 14 Jul 2020 08:08:04: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:08:04: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:08:05: 4000000 INFO @ Tue, 14 Jul 2020 08:08:12: 1000000 INFO @ Tue, 14 Jul 2020 08:08:13: 5000000 INFO @ Tue, 14 Jul 2020 08:08:20: 2000000 INFO @ Tue, 14 Jul 2020 08:08:21: 6000000 INFO @ Tue, 14 Jul 2020 08:08:28: 3000000 INFO @ Tue, 14 Jul 2020 08:08:29: 7000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:08:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Tue, 14 Jul 2020 08:08:34: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:08:34: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:08:37: 4000000 INFO @ Tue, 14 Jul 2020 08:08:38: 8000000 INFO @ Tue, 14 Jul 2020 08:08:42: #1 tag size is determined as 78 bps INFO @ Tue, 14 Jul 2020 08:08:42: #1 tag size = 78 INFO @ Tue, 14 Jul 2020 08:08:42: #1 total tags in treatment: 8445786 INFO @ Tue, 14 Jul 2020 08:08:42: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:08:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:08:42: #1 tags after filtering in treatment: 8445296 INFO @ Tue, 14 Jul 2020 08:08:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:08:42: #1 finished! INFO @ Tue, 14 Jul 2020 08:08:42: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:08:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:08:43: #2 number of paired peaks: 4041 INFO @ Tue, 14 Jul 2020 08:08:43: start model_add_line... INFO @ Tue, 14 Jul 2020 08:08:43: start X-correlation... INFO @ Tue, 14 Jul 2020 08:08:43: 1000000 Traceback (most recent call last): File "/usr/local/bin/macs2", line 4, in __import__('pkg_resources').run_script('MACS2==2.1.1.20160309', 'macs2') File "/usr/local/lib/python2.7/site-packages/setuptools-20.7.0-py2.7.egg/pkg_resources/__init__.py", line 719, in run_script File "/usr/local/lib/python2.7/site-packages/setuptools-20.7.0-py2.7.egg/pkg_resources/__init__.py", line 1511, in run_script File "/usr/local/lib/python2.7/site-packages/MACS2-2.1.1.20160309-py2.7-linux-x86_64.egg/EGG-INFO/scripts/macs2", line 617, in File "/usr/local/lib/python2.7/site-packages/MACS2-2.1.1.20160309-py2.7-linux-x86_64.egg/EGG-INFO/scripts/macs2", line 57, in main File "/usr/local/lib/python2.7/site-packages/MACS2-2.1.1.20160309-py2.7-linux-x86_64.egg/MACS2/callpeak_cmd.py", line 178, in run File "MACS2/PeakModel.pyx", line 108, in MACS2.PeakModel.PeakModel.__init__ (MACS2/PeakModel.c:2438) File "MACS2/PeakModel.pyx", line 150, in MACS2.PeakModel.PeakModel.build (MACS2/PeakModel.c:3010) File "MACS2/PeakModel.pyx", line 230, in MACS2.PeakModel.PeakModel.__paired_peak_model (MACS2/PeakModel.c:4266) ValueError: max() arg is an empty sequence cut: /home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:08:45: 5000000 INFO @ Tue, 14 Jul 2020 08:08:53: 2000000 INFO @ Tue, 14 Jul 2020 08:08:54: 6000000 INFO @ Tue, 14 Jul 2020 08:09:02: 3000000 INFO @ Tue, 14 Jul 2020 08:09:03: 7000000 INFO @ Tue, 14 Jul 2020 08:09:12: 4000000 INFO @ Tue, 14 Jul 2020 08:09:12: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:09:16: #1 tag size is determined as 78 bps INFO @ Tue, 14 Jul 2020 08:09:16: #1 tag size = 78 INFO @ Tue, 14 Jul 2020 08:09:16: #1 total tags in treatment: 8445786 INFO @ Tue, 14 Jul 2020 08:09:16: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:09:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:09:17: #1 tags after filtering in treatment: 8445296 INFO @ Tue, 14 Jul 2020 08:09:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:09:17: #1 finished! INFO @ Tue, 14 Jul 2020 08:09:17: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:09:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:09:18: #2 number of paired peaks: 4041 INFO @ Tue, 14 Jul 2020 08:09:18: start model_add_line... INFO @ Tue, 14 Jul 2020 08:09:18: start X-correlation... Traceback (most recent call last): File "/usr/local/bin/macs2", line 4, in __import__('pkg_resources').run_script('MACS2==2.1.1.20160309', 'macs2') File "/usr/local/lib/python2.7/site-packages/setuptools-20.7.0-py2.7.egg/pkg_resources/__init__.py", line 719, in run_script File "/usr/local/lib/python2.7/site-packages/setuptools-20.7.0-py2.7.egg/pkg_resources/__init__.py", line 1511, in run_script File "/usr/local/lib/python2.7/site-packages/MACS2-2.1.1.20160309-py2.7-linux-x86_64.egg/EGG-INFO/scripts/macs2", line 617, in File "/usr/local/lib/python2.7/site-packages/MACS2-2.1.1.20160309-py2.7-linux-x86_64.egg/EGG-INFO/scripts/macs2", line 57, in main File "/usr/local/lib/python2.7/site-packages/MACS2-2.1.1.20160309-py2.7-linux-x86_64.egg/MACS2/callpeak_cmd.py", line 178, in run File "MACS2/PeakModel.pyx", line 108, in MACS2.PeakModel.PeakModel.__init__ (MACS2/PeakModel.c:2438) File "MACS2/PeakModel.pyx", line 150, in MACS2.PeakModel.PeakModel.build (MACS2/PeakModel.c:3010) File "MACS2/PeakModel.pyx", line 230, in MACS2.PeakModel.PeakModel.__paired_peak_model (MACS2/PeakModel.c:4266) ValueError: max() arg is an empty sequence cut: /home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:09:21: 5000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:09:29: 6000000 INFO @ Tue, 14 Jul 2020 08:09:38: 7000000 INFO @ Tue, 14 Jul 2020 08:09:46: 8000000 INFO @ Tue, 14 Jul 2020 08:09:50: #1 tag size is determined as 78 bps INFO @ Tue, 14 Jul 2020 08:09:50: #1 tag size = 78 INFO @ Tue, 14 Jul 2020 08:09:50: #1 total tags in treatment: 8445786 INFO @ Tue, 14 Jul 2020 08:09:50: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:09:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:09:50: #1 tags after filtering in treatment: 8445296 INFO @ Tue, 14 Jul 2020 08:09:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:09:50: #1 finished! INFO @ Tue, 14 Jul 2020 08:09:50: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:09:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:09:51: #2 number of paired peaks: 4041 INFO @ Tue, 14 Jul 2020 08:09:51: start model_add_line... INFO @ Tue, 14 Jul 2020 08:09:52: start X-correlation... Traceback (most recent call last): File "/usr/local/bin/macs2", line 4, in __import__('pkg_resources').run_script('MACS2==2.1.1.20160309', 'macs2') File "/usr/local/lib/python2.7/site-packages/setuptools-20.7.0-py2.7.egg/pkg_resources/__init__.py", line 719, in run_script File "/usr/local/lib/python2.7/site-packages/setuptools-20.7.0-py2.7.egg/pkg_resources/__init__.py", line 1511, in run_script File "/usr/local/lib/python2.7/site-packages/MACS2-2.1.1.20160309-py2.7-linux-x86_64.egg/EGG-INFO/scripts/macs2", line 617, in File "/usr/local/lib/python2.7/site-packages/MACS2-2.1.1.20160309-py2.7-linux-x86_64.egg/EGG-INFO/scripts/macs2", line 57, in main File "/usr/local/lib/python2.7/site-packages/MACS2-2.1.1.20160309-py2.7-linux-x86_64.egg/MACS2/callpeak_cmd.py", line 178, in run File "MACS2/PeakModel.pyx", line 108, in MACS2.PeakModel.PeakModel.__init__ (MACS2/PeakModel.c:2438) File "MACS2/PeakModel.pyx", line 150, in MACS2.PeakModel.PeakModel.build (MACS2/PeakModel.c:3010) File "MACS2/PeakModel.pyx", line 230, in MACS2.PeakModel.PeakModel.__paired_peak_model (MACS2/PeakModel.c:4266) ValueError: max() arg is an empty sequence cut: /home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX5734953/SRX5734953.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling