Job ID = 6527604 SRX = SRX135518 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:01:57 prefetch.2.10.7: 1) Downloading 'SRR453243'... 2020-06-29T13:01:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:10:39 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:10:39 prefetch.2.10.7: 1) 'SRR453243' was downloaded successfully Read 87339929 spots for SRR453243/SRR453243.sra Written 87339929 spots for SRR453243/SRR453243.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:23:21 87339929 reads; of these: 87339929 (100.00%) were unpaired; of these: 5443135 (6.23%) aligned 0 times 72565770 (83.08%) aligned exactly 1 time 9331024 (10.68%) aligned >1 times 93.77% overall alignment rate Time searching: 00:23:22 Overall time: 00:23:22 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 36 files... [bam_rmdupse_core] 54035516 / 81896794 = 0.6598 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 23:15:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.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 23:15:01: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:15:01: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:15:07: 1000000 INFO @ Mon, 29 Jun 2020 23:15:13: 2000000 INFO @ Mon, 29 Jun 2020 23:15:19: 3000000 INFO @ Mon, 29 Jun 2020 23:15:25: 4000000 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 23:15:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.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 23:15:30: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:15:30: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:15:30: 5000000 INFO @ Mon, 29 Jun 2020 23:15:37: 1000000 INFO @ Mon, 29 Jun 2020 23:15:37: 6000000 INFO @ Mon, 29 Jun 2020 23:15:43: 2000000 INFO @ Mon, 29 Jun 2020 23:15:43: 7000000 INFO @ Mon, 29 Jun 2020 23:15:50: 3000000 INFO @ Mon, 29 Jun 2020 23:15:50: 8000000 INFO @ Mon, 29 Jun 2020 23:15:56: 9000000 INFO @ Mon, 29 Jun 2020 23:15:56: 4000000 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 23:16:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.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 23:16:00: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:16:00: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:16:02: 10000000 INFO @ Mon, 29 Jun 2020 23:16:02: 5000000 INFO @ Mon, 29 Jun 2020 23:16:07: 1000000 INFO @ Mon, 29 Jun 2020 23:16:09: 11000000 INFO @ Mon, 29 Jun 2020 23:16:09: 6000000 INFO @ Mon, 29 Jun 2020 23:16:13: 2000000 INFO @ Mon, 29 Jun 2020 23:16:15: 12000000 INFO @ Mon, 29 Jun 2020 23:16:15: 7000000 INFO @ Mon, 29 Jun 2020 23:16:20: 3000000 INFO @ Mon, 29 Jun 2020 23:16:22: 13000000 INFO @ Mon, 29 Jun 2020 23:16:22: 8000000 INFO @ Mon, 29 Jun 2020 23:16:26: 4000000 INFO @ Mon, 29 Jun 2020 23:16:28: 14000000 INFO @ Mon, 29 Jun 2020 23:16:28: 9000000 INFO @ Mon, 29 Jun 2020 23:16:33: 5000000 INFO @ Mon, 29 Jun 2020 23:16:35: 15000000 INFO @ Mon, 29 Jun 2020 23:16:35: 10000000 INFO @ Mon, 29 Jun 2020 23:16:39: 6000000 INFO @ Mon, 29 Jun 2020 23:16:41: 16000000 INFO @ Mon, 29 Jun 2020 23:16:41: 11000000 INFO @ Mon, 29 Jun 2020 23:16:46: 7000000 INFO @ Mon, 29 Jun 2020 23:16:48: 17000000 INFO @ Mon, 29 Jun 2020 23:16:48: 12000000 INFO @ Mon, 29 Jun 2020 23:16:52: 8000000 INFO @ Mon, 29 Jun 2020 23:16:54: 18000000 INFO @ Mon, 29 Jun 2020 23:16:54: 13000000 INFO @ Mon, 29 Jun 2020 23:16:58: 9000000 INFO @ Mon, 29 Jun 2020 23:17:00: 19000000 INFO @ Mon, 29 Jun 2020 23:17:01: 14000000 INFO @ Mon, 29 Jun 2020 23:17:05: 10000000 INFO @ Mon, 29 Jun 2020 23:17:07: 20000000 INFO @ Mon, 29 Jun 2020 23:17:07: 15000000 INFO @ Mon, 29 Jun 2020 23:17:11: 11000000 INFO @ Mon, 29 Jun 2020 23:17:13: 21000000 INFO @ Mon, 29 Jun 2020 23:17:13: 16000000 INFO @ Mon, 29 Jun 2020 23:17:18: 12000000 INFO @ Mon, 29 Jun 2020 23:17:19: 22000000 INFO @ Mon, 29 Jun 2020 23:17:20: 17000000 INFO @ Mon, 29 Jun 2020 23:17:24: 13000000 INFO @ Mon, 29 Jun 2020 23:17:26: 23000000 INFO @ Mon, 29 Jun 2020 23:17:26: 18000000 INFO @ Mon, 29 Jun 2020 23:17:30: 14000000 INFO @ Mon, 29 Jun 2020 23:17:32: 24000000 INFO @ Mon, 29 Jun 2020 23:17:33: 19000000 INFO @ Mon, 29 Jun 2020 23:17:37: 15000000 INFO @ Mon, 29 Jun 2020 23:17:39: 25000000 INFO @ Mon, 29 Jun 2020 23:17:39: 20000000 INFO @ Mon, 29 Jun 2020 23:17:43: 16000000 INFO @ Mon, 29 Jun 2020 23:17:45: 26000000 INFO @ Mon, 29 Jun 2020 23:17:45: 21000000 INFO @ Mon, 29 Jun 2020 23:17:50: 17000000 INFO @ Mon, 29 Jun 2020 23:17:52: 27000000 INFO @ Mon, 29 Jun 2020 23:17:52: 22000000 INFO @ Mon, 29 Jun 2020 23:17:56: 18000000 INFO @ Mon, 29 Jun 2020 23:17:57: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:17:57: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:17:57: #1 total tags in treatment: 27861278 INFO @ Mon, 29 Jun 2020 23:17:57: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:17:57: #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 23:17:58: #1 tags after filtering in treatment: 27861278 INFO @ Mon, 29 Jun 2020 23:17:58: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:17:58: #1 finished! INFO @ Mon, 29 Jun 2020 23:17:58: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:17:58: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:17:58: 23000000 INFO @ Mon, 29 Jun 2020 23:17:59: #2 number of paired peaks: 39 WARNING @ Mon, 29 Jun 2020 23:17:59: Too few paired peaks (39) 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 23:17:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.05_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/SRX135518/SRX135518.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:18:03: 19000000 INFO @ Mon, 29 Jun 2020 23:18:05: 24000000 INFO @ Mon, 29 Jun 2020 23:18:09: 20000000 INFO @ Mon, 29 Jun 2020 23:18:11: 25000000 INFO @ Mon, 29 Jun 2020 23:18:15: 21000000 INFO @ Mon, 29 Jun 2020 23:18:18: 26000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:18:22: 22000000 INFO @ Mon, 29 Jun 2020 23:18:24: 27000000 INFO @ Mon, 29 Jun 2020 23:18:28: 23000000 INFO @ Mon, 29 Jun 2020 23:18:30: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:18:30: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:18:30: #1 total tags in treatment: 27861278 INFO @ Mon, 29 Jun 2020 23:18:30: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:18:30: #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 23:18:30: #1 tags after filtering in treatment: 27861278 INFO @ Mon, 29 Jun 2020 23:18:30: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:18:30: #1 finished! INFO @ Mon, 29 Jun 2020 23:18:30: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:18:30: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:18:32: #2 number of paired peaks: 39 WARNING @ Mon, 29 Jun 2020 23:18:32: Too few paired peaks (39) 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 23:18:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.10_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/SRX135518/SRX135518.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:18:34: 24000000 INFO @ Mon, 29 Jun 2020 23:18:40: 25000000 INFO @ Mon, 29 Jun 2020 23:18:47: 26000000 INFO @ Mon, 29 Jun 2020 23:18:53: 27000000 INFO @ Mon, 29 Jun 2020 23:18:58: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 23:18:58: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 23:18:58: #1 total tags in treatment: 27861278 INFO @ Mon, 29 Jun 2020 23:18:58: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:18:58: #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 23:18:59: #1 tags after filtering in treatment: 27861278 INFO @ Mon, 29 Jun 2020 23:18:59: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:18:59: #1 finished! INFO @ Mon, 29 Jun 2020 23:18:59: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:18:59: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:19:00: #2 number of paired peaks: 39 WARNING @ Mon, 29 Jun 2020 23:19:00: Too few paired peaks (39) 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 23:19:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.20_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/SRX135518/SRX135518.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX135518/SRX135518.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。