Job ID = 6528451 SRX = SRX647438 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:07:10 prefetch.2.10.7: 1) Downloading 'SRR1508421'... 2020-06-29T15:07:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:17:13 prefetch.2.10.7: HTTPS download failed 2020-06-29T15:17:13 prefetch.2.10.7: 1) failed to download SRR1508421 2020-06-29T15:17:23 prefetch.2.10.7: 1) Downloading 'SRR1508421'... 2020-06-29T15:17:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:17:23 prefetch.2.10.7: Continue download of 'SRR1508421' from 1551844504 2020-06-29T15:17:28 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:17:28 prefetch.2.10.7: 1) 'SRR1508421' was downloaded successfully Read 35256772 spots for SRR1508421/SRR1508421.sra Written 35256772 spots for SRR1508421/SRR1508421.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: 00:23:30 35256772 reads; of these: 35256772 (100.00%) were unpaired; of these: 5701132 (16.17%) aligned 0 times 21117773 (59.90%) aligned exactly 1 time 8437867 (23.93%) aligned >1 times 83.83% overall alignment rate Time searching: 00:23:30 Overall time: 00:23:30 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 16 files... [bam_rmdupse_core] 5561528 / 29555640 = 0.1882 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 01:10:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.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 01:10:07: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:10:07: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:10:15: 1000000 INFO @ Tue, 30 Jun 2020 01:10:22: 2000000 INFO @ Tue, 30 Jun 2020 01:10:29: 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, 30 Jun 2020 01:10:36: 4000000 INFO @ Tue, 30 Jun 2020 01:10:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.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 01:10:37: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:10:37: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:10:45: 5000000 INFO @ Tue, 30 Jun 2020 01:10:47: 1000000 INFO @ Tue, 30 Jun 2020 01:10:53: 6000000 INFO @ Tue, 30 Jun 2020 01:10:57: 2000000 INFO @ Tue, 30 Jun 2020 01:11:02: 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, 30 Jun 2020 01:11:06: 3000000 INFO @ Tue, 30 Jun 2020 01:11:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.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 01:11:07: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:11:07: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:11:10: 8000000 INFO @ Tue, 30 Jun 2020 01:11:16: 4000000 INFO @ Tue, 30 Jun 2020 01:11:17: 1000000 INFO @ Tue, 30 Jun 2020 01:11:19: 9000000 INFO @ Tue, 30 Jun 2020 01:11:26: 5000000 INFO @ Tue, 30 Jun 2020 01:11:26: 2000000 INFO @ Tue, 30 Jun 2020 01:11:28: 10000000 INFO @ Tue, 30 Jun 2020 01:11:36: 3000000 INFO @ Tue, 30 Jun 2020 01:11:36: 6000000 INFO @ Tue, 30 Jun 2020 01:11:36: 11000000 INFO @ Tue, 30 Jun 2020 01:11:45: 12000000 INFO @ Tue, 30 Jun 2020 01:11:45: 4000000 INFO @ Tue, 30 Jun 2020 01:11:46: 7000000 INFO @ Tue, 30 Jun 2020 01:11:53: 13000000 INFO @ Tue, 30 Jun 2020 01:11:55: 5000000 INFO @ Tue, 30 Jun 2020 01:11:56: 8000000 INFO @ Tue, 30 Jun 2020 01:12:02: 14000000 INFO @ Tue, 30 Jun 2020 01:12:04: 6000000 INFO @ Tue, 30 Jun 2020 01:12:06: 9000000 INFO @ Tue, 30 Jun 2020 01:12:11: 15000000 INFO @ Tue, 30 Jun 2020 01:12:14: 7000000 INFO @ Tue, 30 Jun 2020 01:12:15: 10000000 INFO @ Tue, 30 Jun 2020 01:12:20: 16000000 INFO @ Tue, 30 Jun 2020 01:12:24: 8000000 INFO @ Tue, 30 Jun 2020 01:12:25: 11000000 INFO @ Tue, 30 Jun 2020 01:12:29: 17000000 INFO @ Tue, 30 Jun 2020 01:12:33: 9000000 INFO @ Tue, 30 Jun 2020 01:12:34: 12000000 INFO @ Tue, 30 Jun 2020 01:12:37: 18000000 INFO @ Tue, 30 Jun 2020 01:12:43: 10000000 INFO @ Tue, 30 Jun 2020 01:12:44: 13000000 INFO @ Tue, 30 Jun 2020 01:12:46: 19000000 INFO @ Tue, 30 Jun 2020 01:12:52: 11000000 INFO @ Tue, 30 Jun 2020 01:12:53: 14000000 INFO @ Tue, 30 Jun 2020 01:12:55: 20000000 INFO @ Tue, 30 Jun 2020 01:13:02: 12000000 INFO @ Tue, 30 Jun 2020 01:13:03: 15000000 INFO @ Tue, 30 Jun 2020 01:13:04: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:13:11: 13000000 INFO @ Tue, 30 Jun 2020 01:13:13: 16000000 INFO @ Tue, 30 Jun 2020 01:13:13: 22000000 INFO @ Tue, 30 Jun 2020 01:13:20: 14000000 INFO @ Tue, 30 Jun 2020 01:13:22: 23000000 INFO @ Tue, 30 Jun 2020 01:13:22: 17000000 INFO @ Tue, 30 Jun 2020 01:13:30: 15000000 INFO @ Tue, 30 Jun 2020 01:13:31: #1 tag size is determined as 100 bps INFO @ Tue, 30 Jun 2020 01:13:31: #1 tag size = 100 INFO @ Tue, 30 Jun 2020 01:13:31: #1 total tags in treatment: 23994112 INFO @ Tue, 30 Jun 2020 01:13:31: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:13:31: #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 01:13:31: #1 tags after filtering in treatment: 23994112 INFO @ Tue, 30 Jun 2020 01:13:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:13:31: #1 finished! INFO @ Tue, 30 Jun 2020 01:13:31: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:13:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:13:32: 18000000 INFO @ Tue, 30 Jun 2020 01:13:33: #2 number of paired peaks: 12 WARNING @ Tue, 30 Jun 2020 01:13:33: Too few paired peaks (12) 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 01:13:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:13:40: 16000000 INFO @ Tue, 30 Jun 2020 01:13:42: 19000000 INFO @ Tue, 30 Jun 2020 01:13:49: 17000000 INFO @ Tue, 30 Jun 2020 01:13:52: 20000000 INFO @ Tue, 30 Jun 2020 01:13:59: 18000000 INFO @ Tue, 30 Jun 2020 01:14:01: 21000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:14:09: 19000000 INFO @ Tue, 30 Jun 2020 01:14:11: 22000000 INFO @ Tue, 30 Jun 2020 01:14:18: 20000000 INFO @ Tue, 30 Jun 2020 01:14:20: 23000000 INFO @ Tue, 30 Jun 2020 01:14:28: 21000000 INFO @ Tue, 30 Jun 2020 01:14:29: #1 tag size is determined as 100 bps INFO @ Tue, 30 Jun 2020 01:14:29: #1 tag size = 100 INFO @ Tue, 30 Jun 2020 01:14:29: #1 total tags in treatment: 23994112 INFO @ Tue, 30 Jun 2020 01:14:29: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:14:29: #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 01:14:30: #1 tags after filtering in treatment: 23994112 INFO @ Tue, 30 Jun 2020 01:14:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:14:30: #1 finished! INFO @ Tue, 30 Jun 2020 01:14:30: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:14:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:14:31: #2 number of paired peaks: 12 WARNING @ Tue, 30 Jun 2020 01:14:31: Too few paired peaks (12) 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 01:14:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.10_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/SRX647438/SRX647438.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:14:37: 22000000 INFO @ Tue, 30 Jun 2020 01:14:45: 23000000 INFO @ Tue, 30 Jun 2020 01:14:54: #1 tag size is determined as 100 bps INFO @ Tue, 30 Jun 2020 01:14:54: #1 tag size = 100 INFO @ Tue, 30 Jun 2020 01:14:54: #1 total tags in treatment: 23994112 INFO @ Tue, 30 Jun 2020 01:14:54: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:14:54: #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 01:14:54: #1 tags after filtering in treatment: 23994112 INFO @ Tue, 30 Jun 2020 01:14:54: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:14:54: #1 finished! INFO @ Tue, 30 Jun 2020 01:14:54: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:14:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:14:56: #2 number of paired peaks: 12 WARNING @ Tue, 30 Jun 2020 01:14:56: Too few paired peaks (12) 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 01:14:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.20_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/SRX647438/SRX647438.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX647438/SRX647438.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling