Job ID = 16439766 SRX = SRX12413739 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 42533041 spots for SRR16128324/SRR16128324.sra Written 42533041 spots for SRR16128324/SRR16128324.sra fastq に変換しました。 bowtie でマッピング中... Your job 16441625 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 03:16:59 42533041 reads; of these: 42533041 (100.00%) were paired; of these: 4360072 (10.25%) aligned concordantly 0 times 19252020 (45.26%) aligned concordantly exactly 1 time 18920949 (44.49%) aligned concordantly >1 times ---- 4360072 pairs aligned concordantly 0 times; of these: 1100384 (25.24%) aligned discordantly 1 time ---- 3259688 pairs aligned 0 times concordantly or discordantly; of these: 6519376 mates make up the pairs; of these: 4356735 (66.83%) aligned 0 times 828864 (12.71%) aligned exactly 1 time 1333777 (20.46%) aligned >1 times 94.88% overall alignment rate Time searching: 03:17:01 Overall time: 03:17:01 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_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] 12100910 / 38862055 = 0.3114 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 19:51:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.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, 02 Aug 2022 19:51:42: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:51:42: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:51:49: 1000000 INFO @ Tue, 02 Aug 2022 19:51:56: 2000000 INFO @ Tue, 02 Aug 2022 19:52:03: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 19:52:10: 4000000 INFO @ Tue, 02 Aug 2022 19:52:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.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, 02 Aug 2022 19:52:11: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:52:11: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:52:18: 5000000 INFO @ Tue, 02 Aug 2022 19:52:20: 1000000 INFO @ Tue, 02 Aug 2022 19:52:26: 6000000 INFO @ Tue, 02 Aug 2022 19:52:29: 2000000 INFO @ Tue, 02 Aug 2022 19:52:34: 7000000 INFO @ Tue, 02 Aug 2022 19:52:37: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 19:52:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.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, 02 Aug 2022 19:52:41: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:52:41: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:52:42: 8000000 INFO @ Tue, 02 Aug 2022 19:52:46: 4000000 INFO @ Tue, 02 Aug 2022 19:52:51: 1000000 INFO @ Tue, 02 Aug 2022 19:52:51: 9000000 INFO @ Tue, 02 Aug 2022 19:52:56: 5000000 INFO @ Tue, 02 Aug 2022 19:53:01: 10000000 INFO @ Tue, 02 Aug 2022 19:53:01: 2000000 INFO @ Tue, 02 Aug 2022 19:53:05: 6000000 INFO @ Tue, 02 Aug 2022 19:53:10: 11000000 INFO @ Tue, 02 Aug 2022 19:53:12: 3000000 INFO @ Tue, 02 Aug 2022 19:53:14: 7000000 INFO @ Tue, 02 Aug 2022 19:53:19: 12000000 INFO @ Tue, 02 Aug 2022 19:53:22: 4000000 INFO @ Tue, 02 Aug 2022 19:53:23: 8000000 INFO @ Tue, 02 Aug 2022 19:53:29: 13000000 INFO @ Tue, 02 Aug 2022 19:53:32: 5000000 INFO @ Tue, 02 Aug 2022 19:53:33: 9000000 INFO @ Tue, 02 Aug 2022 19:53:38: 14000000 INFO @ Tue, 02 Aug 2022 19:53:42: 6000000 INFO @ Tue, 02 Aug 2022 19:53:42: 10000000 INFO @ Tue, 02 Aug 2022 19:53:47: 15000000 INFO @ Tue, 02 Aug 2022 19:53:51: 11000000 INFO @ Tue, 02 Aug 2022 19:53:52: 7000000 INFO @ Tue, 02 Aug 2022 19:53:56: 16000000 INFO @ Tue, 02 Aug 2022 19:54:01: 12000000 INFO @ Tue, 02 Aug 2022 19:54:02: 8000000 INFO @ Tue, 02 Aug 2022 19:54:05: 17000000 INFO @ Tue, 02 Aug 2022 19:54:10: 13000000 INFO @ Tue, 02 Aug 2022 19:54:12: 9000000 INFO @ Tue, 02 Aug 2022 19:54:14: 18000000 INFO @ Tue, 02 Aug 2022 19:54:19: 14000000 INFO @ Tue, 02 Aug 2022 19:54:22: 10000000 INFO @ Tue, 02 Aug 2022 19:54:23: 19000000 INFO @ Tue, 02 Aug 2022 19:54:28: 15000000 INFO @ Tue, 02 Aug 2022 19:54:32: 11000000 INFO @ Tue, 02 Aug 2022 19:54:32: 20000000 INFO @ Tue, 02 Aug 2022 19:54:38: 16000000 INFO @ Tue, 02 Aug 2022 19:54:42: 21000000 INFO @ Tue, 02 Aug 2022 19:54:42: 12000000 INFO @ Tue, 02 Aug 2022 19:54:47: 17000000 INFO @ Tue, 02 Aug 2022 19:54:51: 22000000 INFO @ Tue, 02 Aug 2022 19:54:52: 13000000 INFO @ Tue, 02 Aug 2022 19:54:56: 18000000 INFO @ Tue, 02 Aug 2022 19:55:00: 23000000 INFO @ Tue, 02 Aug 2022 19:55:02: 14000000 INFO @ Tue, 02 Aug 2022 19:55:05: 19000000 INFO @ Tue, 02 Aug 2022 19:55:09: 24000000 INFO @ Tue, 02 Aug 2022 19:55:12: 15000000 INFO @ Tue, 02 Aug 2022 19:55:14: 20000000 INFO @ Tue, 02 Aug 2022 19:55:18: 25000000 INFO @ Tue, 02 Aug 2022 19:55:22: 16000000 INFO @ Tue, 02 Aug 2022 19:55:24: 21000000 INFO @ Tue, 02 Aug 2022 19:55:27: 26000000 INFO @ Tue, 02 Aug 2022 19:55:32: 17000000 INFO @ Tue, 02 Aug 2022 19:55:33: 22000000 INFO @ Tue, 02 Aug 2022 19:55:37: 27000000 INFO @ Tue, 02 Aug 2022 19:55:42: 23000000 INFO @ Tue, 02 Aug 2022 19:55:42: 18000000 INFO @ Tue, 02 Aug 2022 19:55:47: 28000000 INFO @ Tue, 02 Aug 2022 19:55:50: 24000000 INFO @ Tue, 02 Aug 2022 19:55:51: 19000000 INFO @ Tue, 02 Aug 2022 19:55:56: 29000000 INFO @ Tue, 02 Aug 2022 19:55:59: 25000000 INFO @ Tue, 02 Aug 2022 19:56:01: 20000000 INFO @ Tue, 02 Aug 2022 19:56:05: 30000000 INFO @ Tue, 02 Aug 2022 19:56:08: 26000000 INFO @ Tue, 02 Aug 2022 19:56:10: 21000000 INFO @ Tue, 02 Aug 2022 19:56:14: 31000000 INFO @ Tue, 02 Aug 2022 19:56:17: 27000000 INFO @ Tue, 02 Aug 2022 19:56:20: 22000000 INFO @ Tue, 02 Aug 2022 19:56:23: 32000000 INFO @ Tue, 02 Aug 2022 19:56:26: 28000000 INFO @ Tue, 02 Aug 2022 19:56:29: 23000000 INFO @ Tue, 02 Aug 2022 19:56:32: 33000000 INFO @ Tue, 02 Aug 2022 19:56:35: 29000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 19:56:39: 24000000 INFO @ Tue, 02 Aug 2022 19:56:41: 34000000 INFO @ Tue, 02 Aug 2022 19:56:45: 30000000 INFO @ Tue, 02 Aug 2022 19:56:49: 25000000 INFO @ Tue, 02 Aug 2022 19:56:51: 35000000 INFO @ Tue, 02 Aug 2022 19:56:54: 31000000 INFO @ Tue, 02 Aug 2022 19:56:58: 26000000 INFO @ Tue, 02 Aug 2022 19:57:00: 36000000 INFO @ Tue, 02 Aug 2022 19:57:03: 32000000 INFO @ Tue, 02 Aug 2022 19:57:08: 27000000 INFO @ Tue, 02 Aug 2022 19:57:09: 37000000 INFO @ Tue, 02 Aug 2022 19:57:12: 33000000 INFO @ Tue, 02 Aug 2022 19:57:18: 28000000 INFO @ Tue, 02 Aug 2022 19:57:19: 38000000 INFO @ Tue, 02 Aug 2022 19:57:22: 34000000 INFO @ Tue, 02 Aug 2022 19:57:27: 29000000 INFO @ Tue, 02 Aug 2022 19:57:28: 39000000 INFO @ Tue, 02 Aug 2022 19:57:31: 35000000 INFO @ Tue, 02 Aug 2022 19:57:37: 40000000 INFO @ Tue, 02 Aug 2022 19:57:37: 30000000 INFO @ Tue, 02 Aug 2022 19:57:40: 36000000 INFO @ Tue, 02 Aug 2022 19:57:46: 41000000 INFO @ Tue, 02 Aug 2022 19:57:47: 31000000 INFO @ Tue, 02 Aug 2022 19:57:49: 37000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 19:57:55: 42000000 INFO @ Tue, 02 Aug 2022 19:57:57: 32000000 INFO @ Tue, 02 Aug 2022 19:57:58: 38000000 INFO @ Tue, 02 Aug 2022 19:58:05: 43000000 INFO @ Tue, 02 Aug 2022 19:58:07: 33000000 INFO @ Tue, 02 Aug 2022 19:58:08: 39000000 INFO @ Tue, 02 Aug 2022 19:58:14: 44000000 INFO @ Tue, 02 Aug 2022 19:58:17: 40000000 INFO @ Tue, 02 Aug 2022 19:58:17: 34000000 INFO @ Tue, 02 Aug 2022 19:58:23: 45000000 INFO @ Tue, 02 Aug 2022 19:58:26: 41000000 INFO @ Tue, 02 Aug 2022 19:58:27: 35000000 INFO @ Tue, 02 Aug 2022 19:58:32: 46000000 INFO @ Tue, 02 Aug 2022 19:58:35: 42000000 INFO @ Tue, 02 Aug 2022 19:58:36: 36000000 INFO @ Tue, 02 Aug 2022 19:58:41: 47000000 INFO @ Tue, 02 Aug 2022 19:58:44: 43000000 INFO @ Tue, 02 Aug 2022 19:58:46: 37000000 INFO @ Tue, 02 Aug 2022 19:58:50: 48000000 INFO @ Tue, 02 Aug 2022 19:58:52: 44000000 INFO @ Tue, 02 Aug 2022 19:58:56: 38000000 INFO @ Tue, 02 Aug 2022 19:58:58: 49000000 INFO @ Tue, 02 Aug 2022 19:59:01: 45000000 INFO @ Tue, 02 Aug 2022 19:59:06: 39000000 INFO @ Tue, 02 Aug 2022 19:59:07: 50000000 INFO @ Tue, 02 Aug 2022 19:59:10: 46000000 INFO @ Tue, 02 Aug 2022 19:59:16: 40000000 INFO @ Tue, 02 Aug 2022 19:59:16: 51000000 INFO @ Tue, 02 Aug 2022 19:59:19: 47000000 INFO @ Tue, 02 Aug 2022 19:59:25: 52000000 INFO @ Tue, 02 Aug 2022 19:59:26: 41000000 INFO @ Tue, 02 Aug 2022 19:59:28: 48000000 INFO @ Tue, 02 Aug 2022 19:59:34: 53000000 INFO @ Tue, 02 Aug 2022 19:59:36: 42000000 INFO @ Tue, 02 Aug 2022 19:59:37: 49000000 INFO @ Tue, 02 Aug 2022 19:59:43: 54000000 INFO @ Tue, 02 Aug 2022 19:59:46: 43000000 INFO @ Tue, 02 Aug 2022 19:59:46: 50000000 INFO @ Tue, 02 Aug 2022 19:59:53: 55000000 INFO @ Tue, 02 Aug 2022 19:59:56: 51000000 INFO @ Tue, 02 Aug 2022 19:59:56: 44000000 INFO @ Tue, 02 Aug 2022 20:00:02: 56000000 INFO @ Tue, 02 Aug 2022 20:00:05: 52000000 INFO @ Tue, 02 Aug 2022 20:00:05: 45000000 INFO @ Tue, 02 Aug 2022 20:00:07: #1 tag size is determined as 100 bps INFO @ Tue, 02 Aug 2022 20:00:07: #1 tag size = 100 INFO @ Tue, 02 Aug 2022 20:00:07: #1 total tags in treatment: 26241405 INFO @ Tue, 02 Aug 2022 20:00:07: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 20:00:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 20:00:07: #1 tags after filtering in treatment: 19766943 INFO @ Tue, 02 Aug 2022 20:00:07: #1 Redundant rate of treatment: 0.25 INFO @ Tue, 02 Aug 2022 20:00:07: #1 finished! INFO @ Tue, 02 Aug 2022 20:00:07: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 20:00:07: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 20:00:09: #2 number of paired peaks: 75 WARNING @ Tue, 02 Aug 2022 20:00:09: Too few paired peaks (75) 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, 02 Aug 2022 20:00:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.05_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/SRX12413739/SRX12413739.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 20:00:15: 53000000 INFO @ Tue, 02 Aug 2022 20:00:15: 46000000 INFO @ Tue, 02 Aug 2022 20:00:24: 54000000 INFO @ Tue, 02 Aug 2022 20:00:25: 47000000 INFO @ Tue, 02 Aug 2022 20:00:33: 55000000 INFO @ Tue, 02 Aug 2022 20:00:34: 48000000 INFO @ Tue, 02 Aug 2022 20:00:42: 56000000 INFO @ Tue, 02 Aug 2022 20:00:44: 49000000 INFO @ Tue, 02 Aug 2022 20:00:46: #1 tag size is determined as 100 bps INFO @ Tue, 02 Aug 2022 20:00:46: #1 tag size = 100 INFO @ Tue, 02 Aug 2022 20:00:46: #1 total tags in treatment: 26241405 INFO @ Tue, 02 Aug 2022 20:00:46: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 20:00:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 20:00:47: #1 tags after filtering in treatment: 19766943 INFO @ Tue, 02 Aug 2022 20:00:47: #1 Redundant rate of treatment: 0.25 INFO @ Tue, 02 Aug 2022 20:00:47: #1 finished! INFO @ Tue, 02 Aug 2022 20:00:47: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 20:00:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 20:00:48: #2 number of paired peaks: 75 WARNING @ Tue, 02 Aug 2022 20:00:48: Too few paired peaks (75) 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, 02 Aug 2022 20:00:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.10_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/SRX12413739/SRX12413739.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 20:00:53: 50000000 INFO @ Tue, 02 Aug 2022 20:01:02: 51000000 INFO @ Tue, 02 Aug 2022 20:01:11: 52000000 INFO @ Tue, 02 Aug 2022 20:01:19: 53000000 INFO @ Tue, 02 Aug 2022 20:01:28: 54000000 INFO @ Tue, 02 Aug 2022 20:01:37: 55000000 INFO @ Tue, 02 Aug 2022 20:01:47: 56000000 INFO @ Tue, 02 Aug 2022 20:01:51: #1 tag size is determined as 100 bps INFO @ Tue, 02 Aug 2022 20:01:51: #1 tag size = 100 INFO @ Tue, 02 Aug 2022 20:01:51: #1 total tags in treatment: 26241405 INFO @ Tue, 02 Aug 2022 20:01:51: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 20:01:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 20:01:52: #1 tags after filtering in treatment: 19766943 INFO @ Tue, 02 Aug 2022 20:01:52: #1 Redundant rate of treatment: 0.25 INFO @ Tue, 02 Aug 2022 20:01:52: #1 finished! INFO @ Tue, 02 Aug 2022 20:01:52: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 20:01:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 20:01:53: #2 number of paired peaks: 75 WARNING @ Tue, 02 Aug 2022 20:01:53: Too few paired peaks (75) 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, 02 Aug 2022 20:01:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.20_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/SRX12413739/SRX12413739.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX12413739/SRX12413739.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling