Job ID = 6528382 SRX = SRX5535372 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:48:13 prefetch.2.10.7: 1) Downloading 'SRR8743300'... 2020-06-29T14:48:13 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:52:02 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:52:02 prefetch.2.10.7: 1) 'SRR8743300' was downloaded successfully Read 29514224 spots for SRR8743300/SRR8743300.sra Written 29514224 spots for SRR8743300/SRR8743300.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: 00:10:16 29514224 reads; of these: 29514224 (100.00%) were unpaired; of these: 703159 (2.38%) aligned 0 times 19282671 (65.33%) aligned exactly 1 time 9528394 (32.28%) aligned >1 times 97.62% overall alignment rate Time searching: 00:10:16 Overall time: 00:10:16 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 12 files... [bam_rmdupse_core] 8234164 / 28811065 = 0.2858 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, 30 Jun 2020 00:15:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.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, 30 Jun 2020 00:15:01: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:15:01: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:15:07: 1000000 INFO @ Tue, 30 Jun 2020 00:15:13: 2000000 INFO @ Tue, 30 Jun 2020 00:15:19: 3000000 INFO @ Tue, 30 Jun 2020 00:15:25: 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 @ Tue, 30 Jun 2020 00:15:31: 5000000 INFO @ Tue, 30 Jun 2020 00:15:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.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, 30 Jun 2020 00:15:31: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:15:31: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:15:37: 6000000 INFO @ Tue, 30 Jun 2020 00:15:38: 1000000 INFO @ Tue, 30 Jun 2020 00:15:44: 7000000 INFO @ Tue, 30 Jun 2020 00:15:44: 2000000 INFO @ Tue, 30 Jun 2020 00:15:51: 8000000 INFO @ Tue, 30 Jun 2020 00:15:51: 3000000 INFO @ Tue, 30 Jun 2020 00:15:58: 9000000 INFO @ Tue, 30 Jun 2020 00:15:58: 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 @ Tue, 30 Jun 2020 00:16:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.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, 30 Jun 2020 00:16:01: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:16:01: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:16:04: 5000000 INFO @ Tue, 30 Jun 2020 00:16:04: 10000000 INFO @ Tue, 30 Jun 2020 00:16:08: 1000000 INFO @ Tue, 30 Jun 2020 00:16:11: 6000000 INFO @ Tue, 30 Jun 2020 00:16:11: 11000000 INFO @ Tue, 30 Jun 2020 00:16:15: 2000000 INFO @ Tue, 30 Jun 2020 00:16:18: 7000000 INFO @ Tue, 30 Jun 2020 00:16:18: 12000000 INFO @ Tue, 30 Jun 2020 00:16:21: 3000000 INFO @ Tue, 30 Jun 2020 00:16:25: 8000000 INFO @ Tue, 30 Jun 2020 00:16:25: 13000000 INFO @ Tue, 30 Jun 2020 00:16:28: 4000000 INFO @ Tue, 30 Jun 2020 00:16:32: 9000000 INFO @ Tue, 30 Jun 2020 00:16:32: 14000000 INFO @ Tue, 30 Jun 2020 00:16:35: 5000000 INFO @ Tue, 30 Jun 2020 00:16:39: 10000000 INFO @ Tue, 30 Jun 2020 00:16:39: 15000000 INFO @ Tue, 30 Jun 2020 00:16:42: 6000000 INFO @ Tue, 30 Jun 2020 00:16:45: 11000000 INFO @ Tue, 30 Jun 2020 00:16:46: 16000000 INFO @ Tue, 30 Jun 2020 00:16:49: 7000000 INFO @ Tue, 30 Jun 2020 00:16:52: 12000000 INFO @ Tue, 30 Jun 2020 00:16:52: 17000000 INFO @ Tue, 30 Jun 2020 00:16:56: 8000000 INFO @ Tue, 30 Jun 2020 00:16:59: 13000000 INFO @ Tue, 30 Jun 2020 00:16:59: 18000000 INFO @ Tue, 30 Jun 2020 00:17:03: 9000000 INFO @ Tue, 30 Jun 2020 00:17:06: 14000000 INFO @ Tue, 30 Jun 2020 00:17:06: 19000000 INFO @ Tue, 30 Jun 2020 00:17:09: 10000000 INFO @ Tue, 30 Jun 2020 00:17:13: 15000000 INFO @ Tue, 30 Jun 2020 00:17:13: 20000000 INFO @ Tue, 30 Jun 2020 00:17:16: 11000000 INFO @ Tue, 30 Jun 2020 00:17:17: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:17:17: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:17:17: #1 total tags in treatment: 20576901 INFO @ Tue, 30 Jun 2020 00:17:17: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:17:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:17:17: #1 tags after filtering in treatment: 20576901 INFO @ Tue, 30 Jun 2020 00:17:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:17:17: #1 finished! INFO @ Tue, 30 Jun 2020 00:17:17: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:17:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:17:19: #2 number of paired peaks: 14 WARNING @ Tue, 30 Jun 2020 00:17:19: Too few paired peaks (14) 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 @ Tue, 30 Jun 2020 00:17:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.05_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/SRX5535372/SRX5535372.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:17:19: 16000000 INFO @ Tue, 30 Jun 2020 00:17:23: 12000000 INFO @ Tue, 30 Jun 2020 00:17:26: 17000000 INFO @ Tue, 30 Jun 2020 00:17:30: 13000000 INFO @ Tue, 30 Jun 2020 00:17:33: 18000000 INFO @ Tue, 30 Jun 2020 00:17:37: 14000000 INFO @ Tue, 30 Jun 2020 00:17:40: 19000000 INFO @ Tue, 30 Jun 2020 00:17:44: 15000000 INFO @ Tue, 30 Jun 2020 00:17:47: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:17:51: 16000000 INFO @ Tue, 30 Jun 2020 00:17:51: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:17:51: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:17:51: #1 total tags in treatment: 20576901 INFO @ Tue, 30 Jun 2020 00:17:51: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:17:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:17:52: #1 tags after filtering in treatment: 20576901 INFO @ Tue, 30 Jun 2020 00:17:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:17:52: #1 finished! INFO @ Tue, 30 Jun 2020 00:17:52: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:17:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:17:53: #2 number of paired peaks: 14 WARNING @ Tue, 30 Jun 2020 00:17:53: Too few paired peaks (14) 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 @ Tue, 30 Jun 2020 00:17:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.10_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/SRX5535372/SRX5535372.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:17:57: 17000000 INFO @ Tue, 30 Jun 2020 00:18:03: 18000000 INFO @ Tue, 30 Jun 2020 00:18:09: 19000000 INFO @ Tue, 30 Jun 2020 00:18:15: 20000000 INFO @ Tue, 30 Jun 2020 00:18:18: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:18:18: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:18:18: #1 total tags in treatment: 20576901 INFO @ Tue, 30 Jun 2020 00:18:18: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:18:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:18:18: #1 tags after filtering in treatment: 20576901 INFO @ Tue, 30 Jun 2020 00:18:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:18:18: #1 finished! INFO @ Tue, 30 Jun 2020 00:18:18: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:18:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:18:20: #2 number of paired peaks: 14 WARNING @ Tue, 30 Jun 2020 00:18:20: Too few paired peaks (14) 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 @ Tue, 30 Jun 2020 00:18:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.20_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/SRX5535372/SRX5535372.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5535372/SRX5535372.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。