Job ID = 7115915 SRX = SRX8639465 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:13:12 prefetch.2.10.7: 1) Downloading 'SRR12116965'... 2020-07-22T06:13:12 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:15:33 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:15:33 prefetch.2.10.7: 1) 'SRR12116965' was downloaded successfully 2020-07-22T06:15:33 prefetch.2.10.7: 'SRR12116965' has 0 unresolved dependencies Read 24355914 spots for SRR12116965/SRR12116965.sra Written 24355914 spots for SRR12116965/SRR12116965.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: 00:12:19 24355914 reads; of these: 24355914 (100.00%) were paired; of these: 4543780 (18.66%) aligned concordantly 0 times 16892248 (69.36%) aligned concordantly exactly 1 time 2919886 (11.99%) aligned concordantly >1 times ---- 4543780 pairs aligned concordantly 0 times; of these: 798672 (17.58%) aligned discordantly 1 time ---- 3745108 pairs aligned 0 times concordantly or discordantly; of these: 7490216 mates make up the pairs; of these: 6828466 (91.17%) aligned 0 times 254025 (3.39%) aligned exactly 1 time 407725 (5.44%) aligned >1 times 85.98% overall alignment rate Time searching: 00:12:19 Overall time: 00:12:19 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 20 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 509773 / 20534491 = 0.0248 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 @ Wed, 22 Jul 2020 15:38:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 15:38:21: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:38:21: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:38:28: 1000000 INFO @ Wed, 22 Jul 2020 15:38:35: 2000000 INFO @ Wed, 22 Jul 2020 15:38:41: 3000000 INFO @ Wed, 22 Jul 2020 15:38:47: 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 @ Wed, 22 Jul 2020 15:38:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 15:38:51: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:38:51: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:38:53: 5000000 INFO @ Wed, 22 Jul 2020 15:38:57: 1000000 INFO @ Wed, 22 Jul 2020 15:38:59: 6000000 INFO @ Wed, 22 Jul 2020 15:39:02: 2000000 INFO @ Wed, 22 Jul 2020 15:39:05: 7000000 INFO @ Wed, 22 Jul 2020 15:39:08: 3000000 INFO @ Wed, 22 Jul 2020 15:39:11: 8000000 INFO @ Wed, 22 Jul 2020 15:39:13: 4000000 INFO @ Wed, 22 Jul 2020 15:39:17: 9000000 INFO @ Wed, 22 Jul 2020 15:39:19: 5000000 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 @ Wed, 22 Jul 2020 15:39:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Wed, 22 Jul 2020 15:39:21: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:39:21: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:39:23: 10000000 INFO @ Wed, 22 Jul 2020 15:39:24: 6000000 INFO @ Wed, 22 Jul 2020 15:39:27: 1000000 INFO @ Wed, 22 Jul 2020 15:39:29: 11000000 INFO @ Wed, 22 Jul 2020 15:39:30: 7000000 INFO @ Wed, 22 Jul 2020 15:39:32: 2000000 INFO @ Wed, 22 Jul 2020 15:39:35: 12000000 INFO @ Wed, 22 Jul 2020 15:39:36: 8000000 INFO @ Wed, 22 Jul 2020 15:39:38: 3000000 INFO @ Wed, 22 Jul 2020 15:39:41: 13000000 INFO @ Wed, 22 Jul 2020 15:39:41: 9000000 INFO @ Wed, 22 Jul 2020 15:39:44: 4000000 INFO @ Wed, 22 Jul 2020 15:39:47: 14000000 INFO @ Wed, 22 Jul 2020 15:39:47: 10000000 INFO @ Wed, 22 Jul 2020 15:39:49: 5000000 INFO @ Wed, 22 Jul 2020 15:39:52: 11000000 INFO @ Wed, 22 Jul 2020 15:39:53: 15000000 INFO @ Wed, 22 Jul 2020 15:39:55: 6000000 INFO @ Wed, 22 Jul 2020 15:39:58: 12000000 INFO @ Wed, 22 Jul 2020 15:39:59: 16000000 INFO @ Wed, 22 Jul 2020 15:40:01: 7000000 INFO @ Wed, 22 Jul 2020 15:40:04: 13000000 INFO @ Wed, 22 Jul 2020 15:40:04: 17000000 INFO @ Wed, 22 Jul 2020 15:40:06: 8000000 INFO @ Wed, 22 Jul 2020 15:40:09: 14000000 INFO @ Wed, 22 Jul 2020 15:40:10: 18000000 INFO @ Wed, 22 Jul 2020 15:40:12: 9000000 INFO @ Wed, 22 Jul 2020 15:40:15: 15000000 INFO @ Wed, 22 Jul 2020 15:40:16: 19000000 INFO @ Wed, 22 Jul 2020 15:40:17: 10000000 INFO @ Wed, 22 Jul 2020 15:40:21: 16000000 INFO @ Wed, 22 Jul 2020 15:40:23: 20000000 INFO @ Wed, 22 Jul 2020 15:40:23: 11000000 INFO @ Wed, 22 Jul 2020 15:40:26: 17000000 INFO @ Wed, 22 Jul 2020 15:40:29: 21000000 INFO @ Wed, 22 Jul 2020 15:40:29: 12000000 INFO @ Wed, 22 Jul 2020 15:40:32: 18000000 INFO @ Wed, 22 Jul 2020 15:40:34: 13000000 INFO @ Wed, 22 Jul 2020 15:40:35: 22000000 INFO @ Wed, 22 Jul 2020 15:40:38: 19000000 INFO @ Wed, 22 Jul 2020 15:40:40: 14000000 INFO @ Wed, 22 Jul 2020 15:40:41: 23000000 INFO @ Wed, 22 Jul 2020 15:40:43: 20000000 INFO @ Wed, 22 Jul 2020 15:40:46: 15000000 INFO @ Wed, 22 Jul 2020 15:40:47: 24000000 INFO @ Wed, 22 Jul 2020 15:40:49: 21000000 INFO @ Wed, 22 Jul 2020 15:40:51: 16000000 INFO @ Wed, 22 Jul 2020 15:40:53: 25000000 INFO @ Wed, 22 Jul 2020 15:40:54: 22000000 INFO @ Wed, 22 Jul 2020 15:40:57: 17000000 INFO @ Wed, 22 Jul 2020 15:40:59: 26000000 INFO @ Wed, 22 Jul 2020 15:41:00: 23000000 INFO @ Wed, 22 Jul 2020 15:41:02: 18000000 INFO @ Wed, 22 Jul 2020 15:41:05: 27000000 INFO @ Wed, 22 Jul 2020 15:41:06: 24000000 INFO @ Wed, 22 Jul 2020 15:41:08: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:41:11: 25000000 INFO @ Wed, 22 Jul 2020 15:41:13: 28000000 INFO @ Wed, 22 Jul 2020 15:41:14: 20000000 INFO @ Wed, 22 Jul 2020 15:41:17: 26000000 INFO @ Wed, 22 Jul 2020 15:41:19: 21000000 INFO @ Wed, 22 Jul 2020 15:41:21: 29000000 INFO @ Wed, 22 Jul 2020 15:41:23: 27000000 INFO @ Wed, 22 Jul 2020 15:41:25: 22000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:41:27: 30000000 INFO @ Wed, 22 Jul 2020 15:41:29: 28000000 INFO @ Wed, 22 Jul 2020 15:41:31: 23000000 INFO @ Wed, 22 Jul 2020 15:41:33: 31000000 INFO @ Wed, 22 Jul 2020 15:41:34: 29000000 INFO @ Wed, 22 Jul 2020 15:41:36: 24000000 INFO @ Wed, 22 Jul 2020 15:41:39: 32000000 INFO @ Wed, 22 Jul 2020 15:41:40: 30000000 INFO @ Wed, 22 Jul 2020 15:41:42: 25000000 INFO @ Wed, 22 Jul 2020 15:41:46: 33000000 INFO @ Wed, 22 Jul 2020 15:41:46: 31000000 INFO @ Wed, 22 Jul 2020 15:41:48: 26000000 INFO @ Wed, 22 Jul 2020 15:41:51: 32000000 INFO @ Wed, 22 Jul 2020 15:41:52: 34000000 INFO @ Wed, 22 Jul 2020 15:41:53: 27000000 INFO @ Wed, 22 Jul 2020 15:41:57: 33000000 INFO @ Wed, 22 Jul 2020 15:41:58: 35000000 INFO @ Wed, 22 Jul 2020 15:41:59: 28000000 INFO @ Wed, 22 Jul 2020 15:42:03: 34000000 INFO @ Wed, 22 Jul 2020 15:42:04: 36000000 INFO @ Wed, 22 Jul 2020 15:42:05: 29000000 INFO @ Wed, 22 Jul 2020 15:42:08: 35000000 INFO @ Wed, 22 Jul 2020 15:42:10: 37000000 INFO @ Wed, 22 Jul 2020 15:42:10: 30000000 INFO @ Wed, 22 Jul 2020 15:42:14: 36000000 INFO @ Wed, 22 Jul 2020 15:42:16: 31000000 INFO @ Wed, 22 Jul 2020 15:42:16: 38000000 INFO @ Wed, 22 Jul 2020 15:42:20: 37000000 INFO @ Wed, 22 Jul 2020 15:42:21: 32000000 INFO @ Wed, 22 Jul 2020 15:42:22: 39000000 INFO @ Wed, 22 Jul 2020 15:42:25: 38000000 INFO @ Wed, 22 Jul 2020 15:42:27: 33000000 INFO @ Wed, 22 Jul 2020 15:42:28: 40000000 INFO @ Wed, 22 Jul 2020 15:42:31: 39000000 INFO @ Wed, 22 Jul 2020 15:42:33: 34000000 INFO @ Wed, 22 Jul 2020 15:42:33: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:42:33: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:42:33: #1 total tags in treatment: 19307517 INFO @ Wed, 22 Jul 2020 15:42:33: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:42:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:42:34: #1 tags after filtering in treatment: 12178636 INFO @ Wed, 22 Jul 2020 15:42:34: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 15:42:34: #1 finished! INFO @ Wed, 22 Jul 2020 15:42:34: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:42:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:42:34: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:42:34: 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 @ Wed, 22 Jul 2020 15:42:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.05_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/sacCer3/SRX8639465/SRX8639465.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:42:37: 40000000 INFO @ Wed, 22 Jul 2020 15:42:38: 35000000 INFO @ Wed, 22 Jul 2020 15:42:41: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:42:41: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:42:41: #1 total tags in treatment: 19307517 INFO @ Wed, 22 Jul 2020 15:42:41: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:42:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:42:42: #1 tags after filtering in treatment: 12178636 INFO @ Wed, 22 Jul 2020 15:42:42: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 15:42:42: #1 finished! INFO @ Wed, 22 Jul 2020 15:42:42: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:42:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:42:42: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:42:42: 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 @ Wed, 22 Jul 2020 15:42:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.10_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/sacCer3/SRX8639465/SRX8639465.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:42:43: 36000000 INFO @ Wed, 22 Jul 2020 15:42:48: 37000000 INFO @ Wed, 22 Jul 2020 15:42:54: 38000000 INFO @ Wed, 22 Jul 2020 15:42:59: 39000000 INFO @ Wed, 22 Jul 2020 15:43:04: 40000000 INFO @ Wed, 22 Jul 2020 15:43:08: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:43:08: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:43:08: #1 total tags in treatment: 19307517 INFO @ Wed, 22 Jul 2020 15:43:08: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:43:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 15:43:08: #1 tags after filtering in treatment: 12178636 INFO @ Wed, 22 Jul 2020 15:43:08: #1 Redundant rate of treatment: 0.37 INFO @ Wed, 22 Jul 2020 15:43:08: #1 finished! INFO @ Wed, 22 Jul 2020 15:43:08: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:43:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:43:09: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:43:09: 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 @ Wed, 22 Jul 2020 15:43:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.20_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/sacCer3/SRX8639465/SRX8639465.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639465/SRX8639465.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling