Job ID = 6527593 SRX = SRX119303 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:20:19 prefetch.2.10.7: 1) Downloading 'SRR407387'... 2020-06-29T13:20:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:22:43 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:22:43 prefetch.2.10.7: 1) 'SRR407387' was downloaded successfully Read 24864651 spots for SRR407387/SRR407387.sra Written 24864651 spots for SRR407387/SRR407387.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: 00:10:33 24864651 reads; of these: 24864651 (100.00%) were unpaired; of these: 723486 (2.91%) aligned 0 times 16288286 (65.51%) aligned exactly 1 time 7852879 (31.58%) aligned >1 times 97.09% overall alignment rate Time searching: 00:10:33 Overall time: 00:10:33 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] 2894125 / 24141165 = 0.1199 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 22:49:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.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 22:49:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:49:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:49:18: 1000000 INFO @ Mon, 29 Jun 2020 22:49:25: 2000000 INFO @ Mon, 29 Jun 2020 22:49:32: 3000000 INFO @ Mon, 29 Jun 2020 22:49:38: 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 22:49:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.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 22:49:41: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:49:41: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:49:46: 5000000 INFO @ Mon, 29 Jun 2020 22:49:49: 1000000 INFO @ Mon, 29 Jun 2020 22:49:53: 6000000 INFO @ Mon, 29 Jun 2020 22:49:56: 2000000 INFO @ Mon, 29 Jun 2020 22:50:01: 7000000 INFO @ Mon, 29 Jun 2020 22:50:04: 3000000 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 22:50:09: 8000000 INFO @ Mon, 29 Jun 2020 22:50:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.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 22:50:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:50:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:50:12: 4000000 INFO @ Mon, 29 Jun 2020 22:50:16: 9000000 INFO @ Mon, 29 Jun 2020 22:50:19: 1000000 INFO @ Mon, 29 Jun 2020 22:50:20: 5000000 INFO @ Mon, 29 Jun 2020 22:50:24: 10000000 INFO @ Mon, 29 Jun 2020 22:50:27: 2000000 INFO @ Mon, 29 Jun 2020 22:50:28: 6000000 INFO @ Mon, 29 Jun 2020 22:50:31: 11000000 INFO @ Mon, 29 Jun 2020 22:50:35: 3000000 INFO @ Mon, 29 Jun 2020 22:50:36: 7000000 INFO @ Mon, 29 Jun 2020 22:50:39: 12000000 INFO @ Mon, 29 Jun 2020 22:50:43: 4000000 INFO @ Mon, 29 Jun 2020 22:50:44: 8000000 INFO @ Mon, 29 Jun 2020 22:50:47: 13000000 INFO @ Mon, 29 Jun 2020 22:50:50: 5000000 INFO @ Mon, 29 Jun 2020 22:50:52: 9000000 INFO @ Mon, 29 Jun 2020 22:50:54: 14000000 INFO @ Mon, 29 Jun 2020 22:50:59: 6000000 INFO @ Mon, 29 Jun 2020 22:51:00: 10000000 INFO @ Mon, 29 Jun 2020 22:51:02: 15000000 INFO @ Mon, 29 Jun 2020 22:51:06: 7000000 INFO @ Mon, 29 Jun 2020 22:51:08: 11000000 INFO @ Mon, 29 Jun 2020 22:51:10: 16000000 INFO @ Mon, 29 Jun 2020 22:51:14: 8000000 INFO @ Mon, 29 Jun 2020 22:51:16: 12000000 INFO @ Mon, 29 Jun 2020 22:51:18: 17000000 INFO @ Mon, 29 Jun 2020 22:51:22: 9000000 INFO @ Mon, 29 Jun 2020 22:51:24: 13000000 INFO @ Mon, 29 Jun 2020 22:51:25: 18000000 INFO @ Mon, 29 Jun 2020 22:51:30: 10000000 INFO @ Mon, 29 Jun 2020 22:51:32: 14000000 INFO @ Mon, 29 Jun 2020 22:51:33: 19000000 INFO @ Mon, 29 Jun 2020 22:51:37: 11000000 INFO @ Mon, 29 Jun 2020 22:51:39: 15000000 INFO @ Mon, 29 Jun 2020 22:51:40: 20000000 INFO @ Mon, 29 Jun 2020 22:51:45: 12000000 INFO @ Mon, 29 Jun 2020 22:51:48: 16000000 INFO @ Mon, 29 Jun 2020 22:51:48: 21000000 INFO @ Mon, 29 Jun 2020 22:51:50: #1 tag size is determined as 54 bps INFO @ Mon, 29 Jun 2020 22:51:50: #1 tag size = 54 INFO @ Mon, 29 Jun 2020 22:51:50: #1 total tags in treatment: 21247040 INFO @ Mon, 29 Jun 2020 22:51:50: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:51:50: #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 22:51:50: #1 tags after filtering in treatment: 21247040 INFO @ Mon, 29 Jun 2020 22:51:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:51:50: #1 finished! INFO @ Mon, 29 Jun 2020 22:51:50: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:51:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:51:52: #2 number of paired peaks: 26 WARNING @ Mon, 29 Jun 2020 22:51:52: Too few paired peaks (26) 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 22:51:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.05_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/SRX119303/SRX119303.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:51:53: 13000000 INFO @ Mon, 29 Jun 2020 22:51:55: 17000000 INFO @ Mon, 29 Jun 2020 22:52:00: 14000000 INFO @ Mon, 29 Jun 2020 22:52:02: 18000000 INFO @ Mon, 29 Jun 2020 22:52:07: 15000000 INFO @ Mon, 29 Jun 2020 22:52:10: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:52:15: 16000000 INFO @ Mon, 29 Jun 2020 22:52:17: 20000000 INFO @ Mon, 29 Jun 2020 22:52:22: 17000000 INFO @ Mon, 29 Jun 2020 22:52:24: 21000000 INFO @ Mon, 29 Jun 2020 22:52:26: #1 tag size is determined as 54 bps INFO @ Mon, 29 Jun 2020 22:52:26: #1 tag size = 54 INFO @ Mon, 29 Jun 2020 22:52:26: #1 total tags in treatment: 21247040 INFO @ Mon, 29 Jun 2020 22:52:26: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:52:26: #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 22:52:27: #1 tags after filtering in treatment: 21247040 INFO @ Mon, 29 Jun 2020 22:52:27: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:52:27: #1 finished! INFO @ Mon, 29 Jun 2020 22:52:27: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:52:27: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:52:28: #2 number of paired peaks: 26 WARNING @ Mon, 29 Jun 2020 22:52:28: Too few paired peaks (26) 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 22:52:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.10_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/SRX119303/SRX119303.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:52:29: 18000000 INFO @ Mon, 29 Jun 2020 22:52:35: 19000000 INFO @ Mon, 29 Jun 2020 22:52:42: 20000000 INFO @ Mon, 29 Jun 2020 22:52:48: 21000000 INFO @ Mon, 29 Jun 2020 22:52:50: #1 tag size is determined as 54 bps INFO @ Mon, 29 Jun 2020 22:52:50: #1 tag size = 54 INFO @ Mon, 29 Jun 2020 22:52:50: #1 total tags in treatment: 21247040 INFO @ Mon, 29 Jun 2020 22:52:50: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:52:50: #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 22:52:51: #1 tags after filtering in treatment: 21247040 INFO @ Mon, 29 Jun 2020 22:52:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:52:51: #1 finished! INFO @ Mon, 29 Jun 2020 22:52:51: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:52:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:52:52: #2 number of paired peaks: 26 WARNING @ Mon, 29 Jun 2020 22:52:52: Too few paired peaks (26) 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 22:52:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.20_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/SRX119303/SRX119303.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX119303/SRX119303.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。