Job ID = 6527981 SRX = SRX3632896 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T13:58:36 prefetch.2.10.7: 1) Downloading 'SRR6655532'... 2020-06-29T13:58:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:00:35 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:00:36 prefetch.2.10.7: 'SRR6655532' is valid 2020-06-29T14:00:36 prefetch.2.10.7: 1) 'SRR6655532' was downloaded successfully 2020-06-29T14:00:36 prefetch.2.10.7: 'SRR6655532' has 0 unresolved dependencies Read 9262963 spots for SRR6655532/SRR6655532.sra Written 9262963 spots for SRR6655532/SRR6655532.sra 2020-06-29T14:01:48 prefetch.2.10.7: 1) Downloading 'SRR6655533'... 2020-06-29T14:01:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:05:12 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:05:12 prefetch.2.10.7: 1) 'SRR6655533' was downloaded successfully 2020-06-29T14:05:12 prefetch.2.10.7: 'SRR6655533' has 0 unresolved dependencies Read 11468745 spots for SRR6655533/SRR6655533.sra Written 11468745 spots for SRR6655533/SRR6655533.sra 2020-06-29T14:06:39 prefetch.2.10.7: 1) Downloading 'SRR6655534'... 2020-06-29T14:06:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:07:37 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:07:37 prefetch.2.10.7: 'SRR6655534' is valid 2020-06-29T14:07:37 prefetch.2.10.7: 1) 'SRR6655534' was downloaded successfully 2020-06-29T14:07:37 prefetch.2.10.7: 'SRR6655534' has 0 unresolved dependencies Read 4104715 spots for SRR6655534/SRR6655534.sra Written 4104715 spots for SRR6655534/SRR6655534.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: 00:59:08 24836423 reads; of these: 24836423 (100.00%) were paired; of these: 4963389 (19.98%) aligned concordantly 0 times 15787470 (63.57%) aligned concordantly exactly 1 time 4085564 (16.45%) aligned concordantly >1 times ---- 4963389 pairs aligned concordantly 0 times; of these: 1356464 (27.33%) aligned discordantly 1 time ---- 3606925 pairs aligned 0 times concordantly or discordantly; of these: 7213850 mates make up the pairs; of these: 5851655 (81.12%) aligned 0 times 627695 (8.70%) aligned exactly 1 time 734500 (10.18%) aligned >1 times 88.22% overall alignment rate Time searching: 00:59:08 Overall time: 00:59:08 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 20 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 669784 / 21106927 = 0.0317 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 00:46:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.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 00:46:17: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:46:17: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:46:26: 1000000 INFO @ Tue, 30 Jun 2020 00:46:36: 2000000 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 00:46:46: 3000000 INFO @ Tue, 30 Jun 2020 00:46:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.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 00:46:47: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:46:47: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:46:56: 4000000 INFO @ Tue, 30 Jun 2020 00:46:58: 1000000 INFO @ Tue, 30 Jun 2020 00:47:07: 5000000 INFO @ Tue, 30 Jun 2020 00:47:08: 2000000 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 00:47:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.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 00:47:17: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:47:17: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:47:18: 6000000 INFO @ Tue, 30 Jun 2020 00:47:19: 3000000 INFO @ Tue, 30 Jun 2020 00:47:26: 1000000 INFO @ Tue, 30 Jun 2020 00:47:29: 7000000 INFO @ Tue, 30 Jun 2020 00:47:31: 4000000 INFO @ Tue, 30 Jun 2020 00:47:35: 2000000 INFO @ Tue, 30 Jun 2020 00:47:40: 8000000 INFO @ Tue, 30 Jun 2020 00:47:42: 5000000 INFO @ Tue, 30 Jun 2020 00:47:44: 3000000 INFO @ Tue, 30 Jun 2020 00:47:51: 9000000 INFO @ Tue, 30 Jun 2020 00:47:53: 6000000 INFO @ Tue, 30 Jun 2020 00:47:54: 4000000 INFO @ Tue, 30 Jun 2020 00:48:03: 10000000 INFO @ Tue, 30 Jun 2020 00:48:04: 7000000 INFO @ Tue, 30 Jun 2020 00:48:05: 5000000 INFO @ Tue, 30 Jun 2020 00:48:14: 6000000 INFO @ Tue, 30 Jun 2020 00:48:14: 11000000 INFO @ Tue, 30 Jun 2020 00:48:15: 8000000 INFO @ Tue, 30 Jun 2020 00:48:22: 7000000 INFO @ Tue, 30 Jun 2020 00:48:25: 12000000 INFO @ Tue, 30 Jun 2020 00:48:26: 9000000 INFO @ Tue, 30 Jun 2020 00:48:31: 8000000 INFO @ Tue, 30 Jun 2020 00:48:36: 13000000 INFO @ Tue, 30 Jun 2020 00:48:37: 10000000 INFO @ Tue, 30 Jun 2020 00:48:38: 9000000 INFO @ Tue, 30 Jun 2020 00:48:45: 10000000 INFO @ Tue, 30 Jun 2020 00:48:47: 14000000 INFO @ Tue, 30 Jun 2020 00:48:48: 11000000 INFO @ Tue, 30 Jun 2020 00:48:52: 11000000 INFO @ Tue, 30 Jun 2020 00:48:58: 15000000 INFO @ Tue, 30 Jun 2020 00:48:59: 12000000 INFO @ Tue, 30 Jun 2020 00:49:00: 12000000 INFO @ Tue, 30 Jun 2020 00:49:07: 13000000 INFO @ Tue, 30 Jun 2020 00:49:09: 16000000 INFO @ Tue, 30 Jun 2020 00:49:10: 13000000 INFO @ Tue, 30 Jun 2020 00:49:14: 14000000 INFO @ Tue, 30 Jun 2020 00:49:19: 17000000 INFO @ Tue, 30 Jun 2020 00:49:21: 14000000 INFO @ Tue, 30 Jun 2020 00:49:21: 15000000 INFO @ Tue, 30 Jun 2020 00:49:29: 16000000 INFO @ Tue, 30 Jun 2020 00:49:31: 18000000 INFO @ Tue, 30 Jun 2020 00:49:32: 15000000 INFO @ Tue, 30 Jun 2020 00:49:36: 17000000 INFO @ Tue, 30 Jun 2020 00:49:42: 19000000 INFO @ Tue, 30 Jun 2020 00:49:43: 16000000 INFO @ Tue, 30 Jun 2020 00:49:43: 18000000 INFO @ Tue, 30 Jun 2020 00:49:51: 19000000 INFO @ Tue, 30 Jun 2020 00:49:53: 20000000 INFO @ Tue, 30 Jun 2020 00:49:54: 17000000 INFO @ Tue, 30 Jun 2020 00:49:58: 20000000 INFO @ Tue, 30 Jun 2020 00:50:04: 21000000 INFO @ Tue, 30 Jun 2020 00:50:05: 18000000 INFO @ Tue, 30 Jun 2020 00:50:05: 21000000 INFO @ Tue, 30 Jun 2020 00:50:13: 22000000 INFO @ Tue, 30 Jun 2020 00:50:15: 22000000 INFO @ Tue, 30 Jun 2020 00:50:16: 19000000 INFO @ Tue, 30 Jun 2020 00:50:21: 23000000 INFO @ Tue, 30 Jun 2020 00:50:26: 23000000 INFO @ Tue, 30 Jun 2020 00:50:27: 20000000 INFO @ Tue, 30 Jun 2020 00:50:28: 24000000 INFO @ Tue, 30 Jun 2020 00:50:36: 25000000 INFO @ Tue, 30 Jun 2020 00:50:37: 24000000 INFO @ Tue, 30 Jun 2020 00:50:38: 21000000 INFO @ Tue, 30 Jun 2020 00:50:43: 26000000 INFO @ Tue, 30 Jun 2020 00:50:48: 25000000 INFO @ Tue, 30 Jun 2020 00:50:49: 22000000 INFO @ Tue, 30 Jun 2020 00:50:51: 27000000 INFO @ Tue, 30 Jun 2020 00:50:58: 28000000 INFO @ Tue, 30 Jun 2020 00:50:59: 26000000 INFO @ Tue, 30 Jun 2020 00:51:00: 23000000 INFO @ Tue, 30 Jun 2020 00:51:06: 29000000 INFO @ Tue, 30 Jun 2020 00:51:10: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:51:11: 24000000 INFO @ Tue, 30 Jun 2020 00:51:14: 30000000 INFO @ Tue, 30 Jun 2020 00:51:21: 28000000 INFO @ Tue, 30 Jun 2020 00:51:21: 31000000 INFO @ Tue, 30 Jun 2020 00:51:22: 25000000 INFO @ Tue, 30 Jun 2020 00:51:29: 32000000 INFO @ Tue, 30 Jun 2020 00:51:32: 29000000 INFO @ Tue, 30 Jun 2020 00:51:33: 26000000 INFO @ Tue, 30 Jun 2020 00:51:37: 33000000 INFO @ Tue, 30 Jun 2020 00:51:43: 30000000 INFO @ Tue, 30 Jun 2020 00:51:44: 34000000 INFO @ Tue, 30 Jun 2020 00:51:44: 27000000 INFO @ Tue, 30 Jun 2020 00:51:52: 35000000 INFO @ Tue, 30 Jun 2020 00:51:54: 31000000 INFO @ Tue, 30 Jun 2020 00:51:55: 28000000 INFO @ Tue, 30 Jun 2020 00:51:59: 36000000 INFO @ Tue, 30 Jun 2020 00:52:05: 32000000 INFO @ Tue, 30 Jun 2020 00:52:06: 29000000 INFO @ Tue, 30 Jun 2020 00:52:07: 37000000 INFO @ Tue, 30 Jun 2020 00:52:14: 38000000 INFO @ Tue, 30 Jun 2020 00:52:17: 33000000 INFO @ Tue, 30 Jun 2020 00:52:17: 30000000 INFO @ Tue, 30 Jun 2020 00:52:22: 39000000 INFO @ Tue, 30 Jun 2020 00:52:27: 34000000 INFO @ Tue, 30 Jun 2020 00:52:28: 31000000 INFO @ Tue, 30 Jun 2020 00:52:29: 40000000 INFO @ Tue, 30 Jun 2020 00:52:38: 35000000 INFO @ Tue, 30 Jun 2020 00:52:39: 41000000 INFO @ Tue, 30 Jun 2020 00:52:39: 32000000 INFO @ Tue, 30 Jun 2020 00:52:48: 42000000 INFO @ Tue, 30 Jun 2020 00:52:49: 36000000 INFO @ Tue, 30 Jun 2020 00:52:50: 33000000 INFO @ Tue, 30 Jun 2020 00:52:52: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 00:52:52: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 00:52:52: #1 total tags in treatment: 19232073 INFO @ Tue, 30 Jun 2020 00:52:52: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:52:52: #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 00:52:53: #1 tags after filtering in treatment: 17364438 INFO @ Tue, 30 Jun 2020 00:52:53: #1 Redundant rate of treatment: 0.10 INFO @ Tue, 30 Jun 2020 00:52:53: #1 finished! INFO @ Tue, 30 Jun 2020 00:52:53: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:52:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:52:54: #2 number of paired peaks: 7 WARNING @ Tue, 30 Jun 2020 00:52:54: Too few paired peaks (7) 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 00:52:54: Process for pairing-model is terminated! BigWig に変換しました。 cut: /home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.20_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/SRX3632896/SRX3632896.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:53:00: 37000000 INFO @ Tue, 30 Jun 2020 00:53:01: 34000000 INFO @ Tue, 30 Jun 2020 00:53:11: 38000000 INFO @ Tue, 30 Jun 2020 00:53:12: 35000000 INFO @ Tue, 30 Jun 2020 00:53:22: 39000000 INFO @ Tue, 30 Jun 2020 00:53:23: 36000000 INFO @ Tue, 30 Jun 2020 00:53:33: 40000000 INFO @ Tue, 30 Jun 2020 00:53:34: 37000000 INFO @ Tue, 30 Jun 2020 00:53:44: 41000000 INFO @ Tue, 30 Jun 2020 00:53:45: 38000000 INFO @ Tue, 30 Jun 2020 00:53:55: 42000000 INFO @ Tue, 30 Jun 2020 00:53:56: 39000000 INFO @ Tue, 30 Jun 2020 00:54:00: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 00:54:00: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 00:54:00: #1 total tags in treatment: 19232073 INFO @ Tue, 30 Jun 2020 00:54:00: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:54:00: #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 00:54:00: #1 tags after filtering in treatment: 17364438 INFO @ Tue, 30 Jun 2020 00:54:00: #1 Redundant rate of treatment: 0.10 INFO @ Tue, 30 Jun 2020 00:54:00: #1 finished! INFO @ Tue, 30 Jun 2020 00:54:00: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:54:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:54:01: #2 number of paired peaks: 7 WARNING @ Tue, 30 Jun 2020 00:54:01: Too few paired peaks (7) 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 00:54:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.05_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/SRX3632896/SRX3632896.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:54:07: 40000000 INFO @ Tue, 30 Jun 2020 00:54:17: 41000000 INFO @ Tue, 30 Jun 2020 00:54:28: 42000000 INFO @ Tue, 30 Jun 2020 00:54:32: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 00:54:32: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 00:54:32: #1 total tags in treatment: 19232073 INFO @ Tue, 30 Jun 2020 00:54:32: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:54:32: #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 00:54:33: #1 tags after filtering in treatment: 17364438 INFO @ Tue, 30 Jun 2020 00:54:33: #1 Redundant rate of treatment: 0.10 INFO @ Tue, 30 Jun 2020 00:54:33: #1 finished! INFO @ Tue, 30 Jun 2020 00:54:33: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:54:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:54:34: #2 number of paired peaks: 7 WARNING @ Tue, 30 Jun 2020 00:54:34: Too few paired peaks (7) 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 00:54:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.10_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/SRX3632896/SRX3632896.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632896/SRX3632896.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling