Job ID = 6527719 SRX = SRX245840 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:04:24 prefetch.2.10.7: 1) Downloading 'SRR765860'... 2020-06-29T13:04:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:07:30 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:07:30 prefetch.2.10.7: 1) 'SRR765860' was downloaded successfully Read 26683077 spots for SRR765860/SRR765860.sra Written 26683077 spots for SRR765860/SRR765860.sra 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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:37 26683077 reads; of these: 26683077 (100.00%) were unpaired; of these: 2969930 (11.13%) aligned 0 times 18517042 (69.40%) aligned exactly 1 time 5196105 (19.47%) aligned >1 times 88.87% overall alignment rate Time searching: 00:05:38 Overall time: 00:05:38 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 2343396 / 23713147 = 0.0988 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 @ Mon, 29 Jun 2020 22:24:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.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 @ Mon, 29 Jun 2020 22:24:25: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:24:25: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:24:30: 1000000 INFO @ Mon, 29 Jun 2020 22:24:34: 2000000 INFO @ Mon, 29 Jun 2020 22:24:39: 3000000 INFO @ Mon, 29 Jun 2020 22:24:43: 4000000 INFO @ Mon, 29 Jun 2020 22:24:48: 5000000 INFO @ Mon, 29 Jun 2020 22:24:52: 6000000 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 @ Mon, 29 Jun 2020 22:24:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.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 @ Mon, 29 Jun 2020 22:24:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:24:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:24:57: 7000000 INFO @ Mon, 29 Jun 2020 22:25:01: 1000000 INFO @ Mon, 29 Jun 2020 22:25:02: 8000000 INFO @ Mon, 29 Jun 2020 22:25:06: 2000000 INFO @ Mon, 29 Jun 2020 22:25:07: 9000000 INFO @ Mon, 29 Jun 2020 22:25:11: 10000000 INFO @ Mon, 29 Jun 2020 22:25:12: 3000000 INFO @ Mon, 29 Jun 2020 22:25:16: 11000000 INFO @ Mon, 29 Jun 2020 22:25:17: 4000000 INFO @ Mon, 29 Jun 2020 22:25:21: 12000000 INFO @ Mon, 29 Jun 2020 22:25:23: 5000000 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 @ Mon, 29 Jun 2020 22:25:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.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 @ Mon, 29 Jun 2020 22:25:25: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:25:25: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:25:25: 13000000 INFO @ Mon, 29 Jun 2020 22:25:29: 6000000 INFO @ Mon, 29 Jun 2020 22:25:30: 14000000 INFO @ Mon, 29 Jun 2020 22:25:31: 1000000 INFO @ Mon, 29 Jun 2020 22:25:34: 7000000 INFO @ Mon, 29 Jun 2020 22:25:35: 15000000 INFO @ Mon, 29 Jun 2020 22:25:36: 2000000 INFO @ Mon, 29 Jun 2020 22:25:39: 16000000 INFO @ Mon, 29 Jun 2020 22:25:40: 8000000 INFO @ Mon, 29 Jun 2020 22:25:42: 3000000 INFO @ Mon, 29 Jun 2020 22:25:44: 17000000 INFO @ Mon, 29 Jun 2020 22:25:45: 9000000 INFO @ Mon, 29 Jun 2020 22:25:48: 4000000 INFO @ Mon, 29 Jun 2020 22:25:49: 18000000 INFO @ Mon, 29 Jun 2020 22:25:51: 10000000 INFO @ Mon, 29 Jun 2020 22:25:53: 5000000 INFO @ Mon, 29 Jun 2020 22:25:54: 19000000 INFO @ Mon, 29 Jun 2020 22:25:56: 11000000 INFO @ Mon, 29 Jun 2020 22:25:58: 20000000 INFO @ Mon, 29 Jun 2020 22:25:59: 6000000 INFO @ Mon, 29 Jun 2020 22:26:01: 12000000 INFO @ Mon, 29 Jun 2020 22:26:03: 21000000 INFO @ Mon, 29 Jun 2020 22:26:04: 7000000 INFO @ Mon, 29 Jun 2020 22:26:05: #1 tag size is determined as 42 bps INFO @ Mon, 29 Jun 2020 22:26:05: #1 tag size = 42 INFO @ Mon, 29 Jun 2020 22:26:05: #1 total tags in treatment: 21369751 INFO @ Mon, 29 Jun 2020 22:26:05: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:26:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:26:05: #1 tags after filtering in treatment: 21369751 INFO @ Mon, 29 Jun 2020 22:26:05: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:26:05: #1 finished! INFO @ Mon, 29 Jun 2020 22:26:05: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:26:05: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:26:07: #2 number of paired peaks: 13 WARNING @ Mon, 29 Jun 2020 22:26:07: Too few paired peaks (13) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Mon, 29 Jun 2020 22:26:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.05_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/dm3/SRX245840/SRX245840.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:26:07: 13000000 INFO @ Mon, 29 Jun 2020 22:26:10: 8000000 INFO @ Mon, 29 Jun 2020 22:26:12: 14000000 INFO @ Mon, 29 Jun 2020 22:26:15: 9000000 INFO @ Mon, 29 Jun 2020 22:26:17: 15000000 INFO @ Mon, 29 Jun 2020 22:26:21: 10000000 INFO @ Mon, 29 Jun 2020 22:26:23: 16000000 INFO @ Mon, 29 Jun 2020 22:26:26: 11000000 INFO @ Mon, 29 Jun 2020 22:26:28: 17000000 INFO @ Mon, 29 Jun 2020 22:26:31: 12000000 INFO @ Mon, 29 Jun 2020 22:26:32: 18000000 INFO @ Mon, 29 Jun 2020 22:26:37: 13000000 INFO @ Mon, 29 Jun 2020 22:26:37: 19000000 INFO @ Mon, 29 Jun 2020 22:26:42: 20000000 INFO @ Mon, 29 Jun 2020 22:26:42: 14000000 INFO @ Mon, 29 Jun 2020 22:26:46: 21000000 INFO @ Mon, 29 Jun 2020 22:26:47: 15000000 INFO @ Mon, 29 Jun 2020 22:26:48: #1 tag size is determined as 42 bps INFO @ Mon, 29 Jun 2020 22:26:48: #1 tag size = 42 INFO @ Mon, 29 Jun 2020 22:26:48: #1 total tags in treatment: 21369751 INFO @ Mon, 29 Jun 2020 22:26:48: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:26:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:26:48: #1 tags after filtering in treatment: 21369751 INFO @ Mon, 29 Jun 2020 22:26:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:26:48: #1 finished! INFO @ Mon, 29 Jun 2020 22:26:48: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:26:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:26:50: #2 number of paired peaks: 13 WARNING @ Mon, 29 Jun 2020 22:26:50: Too few paired peaks (13) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Mon, 29 Jun 2020 22:26:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.10_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/dm3/SRX245840/SRX245840.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:26:52: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:26:58: 17000000 INFO @ Mon, 29 Jun 2020 22:27:03: 18000000 INFO @ Mon, 29 Jun 2020 22:27:08: 19000000 INFO @ Mon, 29 Jun 2020 22:27:13: 20000000 INFO @ Mon, 29 Jun 2020 22:27:18: 21000000 INFO @ Mon, 29 Jun 2020 22:27:21: #1 tag size is determined as 42 bps INFO @ Mon, 29 Jun 2020 22:27:21: #1 tag size = 42 INFO @ Mon, 29 Jun 2020 22:27:21: #1 total tags in treatment: 21369751 INFO @ Mon, 29 Jun 2020 22:27:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:27:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:27:21: #1 tags after filtering in treatment: 21369751 INFO @ Mon, 29 Jun 2020 22:27:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:27:21: #1 finished! INFO @ Mon, 29 Jun 2020 22:27:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:27:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:27:22: #2 number of paired peaks: 13 WARNING @ Mon, 29 Jun 2020 22:27:22: Too few paired peaks (13) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Mon, 29 Jun 2020 22:27:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.20_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/dm3/SRX245840/SRX245840.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX245840/SRX245840.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。