Job ID = 6528413 SRX = SRX5865782 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T15:09:06 prefetch.2.10.7: 1) Downloading 'SRR9090633'... 2020-06-29T15:09:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:16:22 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:16:22 prefetch.2.10.7: 1) 'SRR9090633' was downloaded successfully Read 27654181 spots for SRR9090633/SRR9090633.sra Written 27654181 spots for SRR9090633/SRR9090633.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: 00:57:38 27654181 reads; of these: 27654181 (100.00%) were paired; of these: 4191957 (15.16%) aligned concordantly 0 times 16156943 (58.42%) aligned concordantly exactly 1 time 7305281 (26.42%) aligned concordantly >1 times ---- 4191957 pairs aligned concordantly 0 times; of these: 465438 (11.10%) aligned discordantly 1 time ---- 3726519 pairs aligned 0 times concordantly or discordantly; of these: 7453038 mates make up the pairs; of these: 6238885 (83.71%) aligned 0 times 660289 (8.86%) aligned exactly 1 time 553864 (7.43%) aligned >1 times 88.72% overall alignment rate Time searching: 00:57:38 Overall time: 00:57:38 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] 2088880 / 23826798 = 0.0877 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 01:48:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.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 01:48:13: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:48:13: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:48:20: 1000000 INFO @ Tue, 30 Jun 2020 01:48:26: 2000000 INFO @ Tue, 30 Jun 2020 01:48:32: 3000000 INFO @ Tue, 30 Jun 2020 01:48:39: 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 01:48:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.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 01:48:43: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:48:43: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:48:45: 5000000 INFO @ Tue, 30 Jun 2020 01:48:50: 1000000 INFO @ Tue, 30 Jun 2020 01:48:52: 6000000 INFO @ Tue, 30 Jun 2020 01:48:57: 2000000 INFO @ Tue, 30 Jun 2020 01:48:59: 7000000 INFO @ Tue, 30 Jun 2020 01:49:04: 3000000 INFO @ Tue, 30 Jun 2020 01:49:07: 8000000 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 01:49:12: 4000000 INFO @ Tue, 30 Jun 2020 01:49:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.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 01:49:13: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:49:13: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:49:13: 9000000 INFO @ Tue, 30 Jun 2020 01:49:19: 5000000 INFO @ Tue, 30 Jun 2020 01:49:20: 1000000 INFO @ Tue, 30 Jun 2020 01:49:21: 10000000 INFO @ Tue, 30 Jun 2020 01:49:26: 6000000 INFO @ Tue, 30 Jun 2020 01:49:26: 2000000 INFO @ Tue, 30 Jun 2020 01:49:28: 11000000 INFO @ Tue, 30 Jun 2020 01:49:33: 3000000 INFO @ Tue, 30 Jun 2020 01:49:33: 7000000 INFO @ Tue, 30 Jun 2020 01:49:35: 12000000 INFO @ Tue, 30 Jun 2020 01:49:39: 4000000 INFO @ Tue, 30 Jun 2020 01:49:40: 8000000 INFO @ Tue, 30 Jun 2020 01:49:42: 13000000 INFO @ Tue, 30 Jun 2020 01:49:46: 5000000 INFO @ Tue, 30 Jun 2020 01:49:47: 9000000 INFO @ Tue, 30 Jun 2020 01:49:49: 14000000 INFO @ Tue, 30 Jun 2020 01:49:53: 6000000 INFO @ Tue, 30 Jun 2020 01:49:55: 10000000 INFO @ Tue, 30 Jun 2020 01:49:56: 15000000 INFO @ Tue, 30 Jun 2020 01:49:59: 7000000 INFO @ Tue, 30 Jun 2020 01:50:02: 11000000 INFO @ Tue, 30 Jun 2020 01:50:02: 16000000 INFO @ Tue, 30 Jun 2020 01:50:06: 8000000 INFO @ Tue, 30 Jun 2020 01:50:09: 12000000 INFO @ Tue, 30 Jun 2020 01:50:10: 17000000 INFO @ Tue, 30 Jun 2020 01:50:12: 9000000 INFO @ Tue, 30 Jun 2020 01:50:16: 13000000 INFO @ Tue, 30 Jun 2020 01:50:16: 18000000 INFO @ Tue, 30 Jun 2020 01:50:19: 10000000 INFO @ Tue, 30 Jun 2020 01:50:23: 19000000 INFO @ Tue, 30 Jun 2020 01:50:23: 14000000 INFO @ Tue, 30 Jun 2020 01:50:25: 11000000 INFO @ Tue, 30 Jun 2020 01:50:30: 20000000 INFO @ Tue, 30 Jun 2020 01:50:31: 15000000 INFO @ Tue, 30 Jun 2020 01:50:32: 12000000 INFO @ Tue, 30 Jun 2020 01:50:37: 21000000 INFO @ Tue, 30 Jun 2020 01:50:38: 16000000 INFO @ Tue, 30 Jun 2020 01:50:39: 13000000 INFO @ Tue, 30 Jun 2020 01:50:44: 22000000 INFO @ Tue, 30 Jun 2020 01:50:45: 17000000 INFO @ Tue, 30 Jun 2020 01:50:45: 14000000 INFO @ Tue, 30 Jun 2020 01:50:51: 23000000 INFO @ Tue, 30 Jun 2020 01:50:52: 18000000 INFO @ Tue, 30 Jun 2020 01:50:52: 15000000 INFO @ Tue, 30 Jun 2020 01:50:58: 24000000 INFO @ Tue, 30 Jun 2020 01:50:59: 16000000 INFO @ Tue, 30 Jun 2020 01:50:59: 19000000 INFO @ Tue, 30 Jun 2020 01:51:05: 25000000 INFO @ Tue, 30 Jun 2020 01:51:06: 17000000 INFO @ Tue, 30 Jun 2020 01:51:06: 20000000 INFO @ Tue, 30 Jun 2020 01:51:12: 26000000 INFO @ Tue, 30 Jun 2020 01:51:12: 18000000 INFO @ Tue, 30 Jun 2020 01:51:14: 21000000 INFO @ Tue, 30 Jun 2020 01:51:19: 27000000 INFO @ Tue, 30 Jun 2020 01:51:19: 19000000 INFO @ Tue, 30 Jun 2020 01:51:21: 22000000 INFO @ Tue, 30 Jun 2020 01:51:25: 28000000 INFO @ Tue, 30 Jun 2020 01:51:26: 20000000 INFO @ Tue, 30 Jun 2020 01:51:28: 23000000 INFO @ Tue, 30 Jun 2020 01:51:31: 29000000 INFO @ Tue, 30 Jun 2020 01:51:32: 21000000 INFO @ Tue, 30 Jun 2020 01:51:34: 24000000 INFO @ Tue, 30 Jun 2020 01:51:38: 30000000 INFO @ Tue, 30 Jun 2020 01:51:39: 22000000 INFO @ Tue, 30 Jun 2020 01:51:41: 25000000 INFO @ Tue, 30 Jun 2020 01:51:44: 31000000 INFO @ Tue, 30 Jun 2020 01:51:45: 23000000 INFO @ Tue, 30 Jun 2020 01:51:48: 26000000 INFO @ Tue, 30 Jun 2020 01:51:51: 32000000 INFO @ Tue, 30 Jun 2020 01:51:52: 24000000 INFO @ Tue, 30 Jun 2020 01:51:55: 27000000 INFO @ Tue, 30 Jun 2020 01:51:57: 33000000 INFO @ Tue, 30 Jun 2020 01:51:58: 25000000 INFO @ Tue, 30 Jun 2020 01:52:02: 28000000 INFO @ Tue, 30 Jun 2020 01:52:04: 34000000 INFO @ Tue, 30 Jun 2020 01:52:05: 26000000 INFO @ Tue, 30 Jun 2020 01:52:09: 29000000 INFO @ Tue, 30 Jun 2020 01:52:10: 35000000 INFO @ Tue, 30 Jun 2020 01:52:11: 27000000 INFO @ Tue, 30 Jun 2020 01:52:15: 30000000 INFO @ Tue, 30 Jun 2020 01:52:17: 36000000 INFO @ Tue, 30 Jun 2020 01:52:18: 28000000 INFO @ Tue, 30 Jun 2020 01:52:22: 31000000 INFO @ Tue, 30 Jun 2020 01:52:23: 37000000 INFO @ Tue, 30 Jun 2020 01:52:24: 29000000 INFO @ Tue, 30 Jun 2020 01:52:29: 32000000 INFO @ Tue, 30 Jun 2020 01:52:30: 38000000 INFO @ Tue, 30 Jun 2020 01:52:31: 30000000 INFO @ Tue, 30 Jun 2020 01:52:36: 33000000 INFO @ Tue, 30 Jun 2020 01:52:37: 39000000 INFO @ Tue, 30 Jun 2020 01:52:37: 31000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:52:43: 34000000 INFO @ Tue, 30 Jun 2020 01:52:43: 40000000 INFO @ Tue, 30 Jun 2020 01:52:44: 32000000 INFO @ Tue, 30 Jun 2020 01:52:50: 41000000 INFO @ Tue, 30 Jun 2020 01:52:50: 35000000 INFO @ Tue, 30 Jun 2020 01:52:51: 33000000 INFO @ Tue, 30 Jun 2020 01:52:57: 42000000 INFO @ Tue, 30 Jun 2020 01:52:57: 34000000 INFO @ Tue, 30 Jun 2020 01:52:58: 36000000 INFO @ Tue, 30 Jun 2020 01:53:03: 43000000 INFO @ Tue, 30 Jun 2020 01:53:04: 35000000 INFO @ Tue, 30 Jun 2020 01:53:05: 37000000 INFO @ Tue, 30 Jun 2020 01:53:10: 44000000 INFO @ Tue, 30 Jun 2020 01:53:10: 36000000 INFO @ Tue, 30 Jun 2020 01:53:12: 38000000 INFO @ Tue, 30 Jun 2020 01:53:16: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:53:16: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:53:16: #1 total tags in treatment: 21391851 INFO @ Tue, 30 Jun 2020 01:53:16: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:53:16: #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 01:53:16: #1 tags after filtering in treatment: 18018761 INFO @ Tue, 30 Jun 2020 01:53:16: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 30 Jun 2020 01:53:16: #1 finished! INFO @ Tue, 30 Jun 2020 01:53:16: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:53:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:53:16: 37000000 INFO @ Tue, 30 Jun 2020 01:53:17: #2 number of paired peaks: 11 WARNING @ Tue, 30 Jun 2020 01:53:17: Too few paired peaks (11) 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 01:53:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.05_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/SRX5865782/SRX5865782.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:53:19: 39000000 INFO @ Tue, 30 Jun 2020 01:53:23: 38000000 INFO @ Tue, 30 Jun 2020 01:53:26: 40000000 INFO @ Tue, 30 Jun 2020 01:53:29: 39000000 INFO @ Tue, 30 Jun 2020 01:53:33: 41000000 INFO @ Tue, 30 Jun 2020 01:53:35: 40000000 INFO @ Tue, 30 Jun 2020 01:53:40: 42000000 INFO @ Tue, 30 Jun 2020 01:53:41: 41000000 INFO @ Tue, 30 Jun 2020 01:53:47: 43000000 INFO @ Tue, 30 Jun 2020 01:53:47: 42000000 INFO @ Tue, 30 Jun 2020 01:53:54: 44000000 INFO @ Tue, 30 Jun 2020 01:53:54: 43000000 INFO @ Tue, 30 Jun 2020 01:54:00: 44000000 INFO @ Tue, 30 Jun 2020 01:54:00: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:54:00: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:54:00: #1 total tags in treatment: 21391851 INFO @ Tue, 30 Jun 2020 01:54:00: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:54:00: #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 01:54:00: #1 tags after filtering in treatment: 18018761 INFO @ Tue, 30 Jun 2020 01:54:00: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 30 Jun 2020 01:54:00: #1 finished! INFO @ Tue, 30 Jun 2020 01:54:00: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:54:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:54:02: #2 number of paired peaks: 11 WARNING @ Tue, 30 Jun 2020 01:54:02: Too few paired peaks (11) 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 01:54:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.10_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/SRX5865782/SRX5865782.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:54:05: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:54:05: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:54:05: #1 total tags in treatment: 21391851 INFO @ Tue, 30 Jun 2020 01:54:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:54:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:54:06: #1 tags after filtering in treatment: 18018761 INFO @ Tue, 30 Jun 2020 01:54:06: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 30 Jun 2020 01:54:06: #1 finished! INFO @ Tue, 30 Jun 2020 01:54:06: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:54:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:54:07: #2 number of paired peaks: 11 WARNING @ Tue, 30 Jun 2020 01:54:07: Too few paired peaks (11) 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 01:54:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.20_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/SRX5865782/SRX5865782.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865782/SRX5865782.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling