Job ID = 6527985 SRX = SRX3632903 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T13:49:14 prefetch.2.10.7: 1) Downloading 'SRR6655543'... 2020-06-29T13:49:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:53:03 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:53:03 prefetch.2.10.7: 1) 'SRR6655543' was downloaded successfully 2020-06-29T13:53:03 prefetch.2.10.7: 'SRR6655543' has 0 unresolved dependencies Read 17270610 spots for SRR6655543/SRR6655543.sra Written 17270610 spots for SRR6655543/SRR6655543.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: 00:38:58 17270610 reads; of these: 17270610 (100.00%) were paired; of these: 1214129 (7.03%) aligned concordantly 0 times 13233892 (76.63%) aligned concordantly exactly 1 time 2822589 (16.34%) aligned concordantly >1 times ---- 1214129 pairs aligned concordantly 0 times; of these: 354558 (29.20%) aligned discordantly 1 time ---- 859571 pairs aligned 0 times concordantly or discordantly; of these: 1719142 mates make up the pairs; of these: 1119810 (65.14%) aligned 0 times 397915 (23.15%) aligned exactly 1 time 201417 (11.72%) aligned >1 times 96.76% overall alignment rate Time searching: 00:38:58 Overall time: 00:38:58 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_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] 868220 / 16349798 = 0.0531 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 23:54:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.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 23:54:28: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:54:28: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:54:38: 1000000 INFO @ Mon, 29 Jun 2020 23:54:47: 2000000 INFO @ Mon, 29 Jun 2020 23:54:56: 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 @ Mon, 29 Jun 2020 23:54:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.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 23:54:58: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:54:58: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:55:04: 4000000 INFO @ Mon, 29 Jun 2020 23:55:06: 1000000 INFO @ Mon, 29 Jun 2020 23:55:13: 5000000 INFO @ Mon, 29 Jun 2020 23:55:14: 2000000 INFO @ Mon, 29 Jun 2020 23:55:21: 6000000 INFO @ Mon, 29 Jun 2020 23:55:22: 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 23:55:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.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 23:55:29: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:55:29: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:55:30: 7000000 INFO @ Mon, 29 Jun 2020 23:55:30: 4000000 INFO @ Mon, 29 Jun 2020 23:55:38: 1000000 INFO @ Mon, 29 Jun 2020 23:55:39: 5000000 INFO @ Mon, 29 Jun 2020 23:55:39: 8000000 INFO @ Mon, 29 Jun 2020 23:55:47: 6000000 INFO @ Mon, 29 Jun 2020 23:55:48: 2000000 INFO @ Mon, 29 Jun 2020 23:55:48: 9000000 INFO @ Mon, 29 Jun 2020 23:55:55: 7000000 INFO @ Mon, 29 Jun 2020 23:55:58: 3000000 INFO @ Mon, 29 Jun 2020 23:55:58: 10000000 INFO @ Mon, 29 Jun 2020 23:56:03: 8000000 INFO @ Mon, 29 Jun 2020 23:56:07: 4000000 INFO @ Mon, 29 Jun 2020 23:56:08: 11000000 INFO @ Mon, 29 Jun 2020 23:56:12: 9000000 INFO @ Mon, 29 Jun 2020 23:56:17: 5000000 INFO @ Mon, 29 Jun 2020 23:56:18: 12000000 INFO @ Mon, 29 Jun 2020 23:56:20: 10000000 INFO @ Mon, 29 Jun 2020 23:56:27: 6000000 INFO @ Mon, 29 Jun 2020 23:56:28: 13000000 INFO @ Mon, 29 Jun 2020 23:56:29: 11000000 INFO @ Mon, 29 Jun 2020 23:56:37: 12000000 INFO @ Mon, 29 Jun 2020 23:56:37: 7000000 INFO @ Mon, 29 Jun 2020 23:56:38: 14000000 INFO @ Mon, 29 Jun 2020 23:56:46: 13000000 INFO @ Mon, 29 Jun 2020 23:56:48: 8000000 INFO @ Mon, 29 Jun 2020 23:56:48: 15000000 INFO @ Mon, 29 Jun 2020 23:56:54: 14000000 INFO @ Mon, 29 Jun 2020 23:56:58: 9000000 INFO @ Mon, 29 Jun 2020 23:56:59: 16000000 INFO @ Mon, 29 Jun 2020 23:57:02: 15000000 INFO @ Mon, 29 Jun 2020 23:57:08: 10000000 INFO @ Mon, 29 Jun 2020 23:57:09: 17000000 INFO @ Mon, 29 Jun 2020 23:57:10: 16000000 INFO @ Mon, 29 Jun 2020 23:57:18: 17000000 INFO @ Mon, 29 Jun 2020 23:57:18: 11000000 INFO @ Mon, 29 Jun 2020 23:57:19: 18000000 INFO @ Mon, 29 Jun 2020 23:57:26: 18000000 INFO @ Mon, 29 Jun 2020 23:57:28: 19000000 INFO @ Mon, 29 Jun 2020 23:57:28: 12000000 INFO @ Mon, 29 Jun 2020 23:57:34: 19000000 INFO @ Mon, 29 Jun 2020 23:57:38: 20000000 INFO @ Mon, 29 Jun 2020 23:57:39: 13000000 INFO @ Mon, 29 Jun 2020 23:57:41: 20000000 INFO @ Mon, 29 Jun 2020 23:57:48: 21000000 INFO @ Mon, 29 Jun 2020 23:57:48: 21000000 INFO @ Mon, 29 Jun 2020 23:57:49: 14000000 INFO @ Mon, 29 Jun 2020 23:57:55: 22000000 INFO @ Mon, 29 Jun 2020 23:57:58: 22000000 INFO @ Mon, 29 Jun 2020 23:57:59: 15000000 INFO @ Mon, 29 Jun 2020 23:58:02: 23000000 INFO @ Mon, 29 Jun 2020 23:58:08: 23000000 INFO @ Mon, 29 Jun 2020 23:58:08: 16000000 INFO @ Mon, 29 Jun 2020 23:58:10: 24000000 INFO @ Mon, 29 Jun 2020 23:58:17: 25000000 INFO @ Mon, 29 Jun 2020 23:58:17: 24000000 INFO @ Mon, 29 Jun 2020 23:58:18: 17000000 INFO @ Mon, 29 Jun 2020 23:58:24: 26000000 INFO @ Mon, 29 Jun 2020 23:58:27: 25000000 INFO @ Mon, 29 Jun 2020 23:58:27: 18000000 INFO @ Mon, 29 Jun 2020 23:58:30: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:58:36: 26000000 INFO @ Mon, 29 Jun 2020 23:58:36: 19000000 INFO @ Mon, 29 Jun 2020 23:58:41: 28000000 INFO @ Mon, 29 Jun 2020 23:58:44: 27000000 INFO @ Mon, 29 Jun 2020 23:58:44: 20000000 INFO @ Mon, 29 Jun 2020 23:58:51: 29000000 INFO @ Mon, 29 Jun 2020 23:58:52: 28000000 INFO @ Mon, 29 Jun 2020 23:58:53: 21000000 INFO @ Mon, 29 Jun 2020 23:58:59: 30000000 INFO @ Mon, 29 Jun 2020 23:59:01: 29000000 INFO @ Mon, 29 Jun 2020 23:59:01: 22000000 INFO @ Mon, 29 Jun 2020 23:59:08: 31000000 INFO @ Mon, 29 Jun 2020 23:59:09: 30000000 INFO @ Mon, 29 Jun 2020 23:59:09: 23000000 INFO @ Mon, 29 Jun 2020 23:59:14: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 23:59:14: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 23:59:14: #1 total tags in treatment: 15198434 INFO @ Mon, 29 Jun 2020 23:59:14: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:59:14: #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 23:59:14: #1 tags after filtering in treatment: 13547319 INFO @ Mon, 29 Jun 2020 23:59:14: #1 Redundant rate of treatment: 0.11 INFO @ Mon, 29 Jun 2020 23:59:14: #1 finished! INFO @ Mon, 29 Jun 2020 23:59:14: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:59:14: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:59:15: #2 number of paired peaks: 0 WARNING @ Mon, 29 Jun 2020 23:59:15: Too few paired peaks (0) 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 23:59:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.10_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/SRX3632903/SRX3632903.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:59:17: 24000000 INFO @ Mon, 29 Jun 2020 23:59:17: 31000000 INFO @ Mon, 29 Jun 2020 23:59:23: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 23:59:23: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 23:59:23: #1 total tags in treatment: 15198434 INFO @ Mon, 29 Jun 2020 23:59:23: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:59:23: #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 23:59:23: #1 tags after filtering in treatment: 13547319 INFO @ Mon, 29 Jun 2020 23:59:23: #1 Redundant rate of treatment: 0.11 INFO @ Mon, 29 Jun 2020 23:59:23: #1 finished! INFO @ Mon, 29 Jun 2020 23:59:23: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:59:23: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:59:24: #2 number of paired peaks: 0 WARNING @ Mon, 29 Jun 2020 23:59:24: Too few paired peaks (0) 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 23:59:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.05_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/SRX3632903/SRX3632903.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:59:25: 25000000 INFO @ Mon, 29 Jun 2020 23:59:31: 26000000 INFO @ Mon, 29 Jun 2020 23:59:37: 27000000 INFO @ Mon, 29 Jun 2020 23:59:43: 28000000 INFO @ Mon, 29 Jun 2020 23:59:49: 29000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:59:55: 30000000 INFO @ Tue, 30 Jun 2020 00:00:01: 31000000 INFO @ Tue, 30 Jun 2020 00:00:05: #1 tag size is determined as 75 bps INFO @ Tue, 30 Jun 2020 00:00:05: #1 tag size = 75 INFO @ Tue, 30 Jun 2020 00:00:05: #1 total tags in treatment: 15198434 INFO @ Tue, 30 Jun 2020 00:00:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:00:05: #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 00:00:06: #1 tags after filtering in treatment: 13547319 INFO @ Tue, 30 Jun 2020 00:00:06: #1 Redundant rate of treatment: 0.11 INFO @ Tue, 30 Jun 2020 00:00:06: #1 finished! INFO @ Tue, 30 Jun 2020 00:00:06: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:00:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:00:06: #2 number of paired peaks: 0 WARNING @ Tue, 30 Jun 2020 00:00:06: Too few paired peaks (0) 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 00:00:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.20_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/SRX3632903/SRX3632903.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3632903/SRX3632903.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling