Job ID = 7115808 SRX = SRX8639461 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:12:58 prefetch.2.10.7: 1) Downloading 'SRR12117033'... 2020-07-22T06:12:58 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:15:17 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:15:17 prefetch.2.10.7: 1) 'SRR12117033' was downloaded successfully 2020-07-22T06:15:17 prefetch.2.10.7: 'SRR12117033' has 0 unresolved dependencies Read 23813501 spots for SRR12117033/SRR12117033.sra Written 23813501 spots for SRR12117033/SRR12117033.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: 00:12:06 23813501 reads; of these: 23813501 (100.00%) were paired; of these: 5611032 (23.56%) aligned concordantly 0 times 16106204 (67.63%) aligned concordantly exactly 1 time 2096265 (8.80%) aligned concordantly >1 times ---- 5611032 pairs aligned concordantly 0 times; of these: 97479 (1.74%) aligned discordantly 1 time ---- 5513553 pairs aligned 0 times concordantly or discordantly; of these: 11027106 mates make up the pairs; of these: 10752691 (97.51%) aligned 0 times 209533 (1.90%) aligned exactly 1 time 64882 (0.59%) aligned >1 times 77.42% overall alignment rate Time searching: 00:12:06 Overall time: 00:12:06 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 16 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] 322510 / 18272616 = 0.0176 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 15:37:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.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 15:37:34: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:37:34: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:37:40: 1000000 INFO @ Wed, 22 Jul 2020 15:37:45: 2000000 INFO @ Wed, 22 Jul 2020 15:37:50: 3000000 INFO @ Wed, 22 Jul 2020 15:37:55: 4000000 INFO @ Wed, 22 Jul 2020 15:38:01: 5000000 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 15:38:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.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 15:38:04: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:38:04: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:38:06: 6000000 INFO @ Wed, 22 Jul 2020 15:38:10: 1000000 INFO @ Wed, 22 Jul 2020 15:38:12: 7000000 INFO @ Wed, 22 Jul 2020 15:38:17: 2000000 INFO @ Wed, 22 Jul 2020 15:38:18: 8000000 INFO @ Wed, 22 Jul 2020 15:38:23: 3000000 INFO @ Wed, 22 Jul 2020 15:38:24: 9000000 INFO @ Wed, 22 Jul 2020 15:38:29: 4000000 INFO @ Wed, 22 Jul 2020 15:38:30: 10000000 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 15:38:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.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 15:38:34: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:38:34: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:38:36: 5000000 INFO @ Wed, 22 Jul 2020 15:38:36: 11000000 INFO @ Wed, 22 Jul 2020 15:38:41: 1000000 INFO @ Wed, 22 Jul 2020 15:38:42: 12000000 INFO @ Wed, 22 Jul 2020 15:38:43: 6000000 INFO @ Wed, 22 Jul 2020 15:38:48: 2000000 INFO @ Wed, 22 Jul 2020 15:38:48: 13000000 INFO @ Wed, 22 Jul 2020 15:38:50: 7000000 INFO @ Wed, 22 Jul 2020 15:38:54: 14000000 INFO @ Wed, 22 Jul 2020 15:38:55: 3000000 INFO @ Wed, 22 Jul 2020 15:38:57: 8000000 INFO @ Wed, 22 Jul 2020 15:39:00: 15000000 INFO @ Wed, 22 Jul 2020 15:39:02: 4000000 INFO @ Wed, 22 Jul 2020 15:39:04: 9000000 INFO @ Wed, 22 Jul 2020 15:39:06: 16000000 INFO @ Wed, 22 Jul 2020 15:39:09: 5000000 INFO @ Wed, 22 Jul 2020 15:39:11: 10000000 INFO @ Wed, 22 Jul 2020 15:39:12: 17000000 INFO @ Wed, 22 Jul 2020 15:39:16: 6000000 INFO @ Wed, 22 Jul 2020 15:39:18: 18000000 INFO @ Wed, 22 Jul 2020 15:39:18: 11000000 INFO @ Wed, 22 Jul 2020 15:39:23: 7000000 INFO @ Wed, 22 Jul 2020 15:39:24: 19000000 INFO @ Wed, 22 Jul 2020 15:39:25: 12000000 INFO @ Wed, 22 Jul 2020 15:39:30: 8000000 INFO @ Wed, 22 Jul 2020 15:39:30: 20000000 INFO @ Wed, 22 Jul 2020 15:39:32: 13000000 INFO @ Wed, 22 Jul 2020 15:39:36: 21000000 INFO @ Wed, 22 Jul 2020 15:39:37: 9000000 INFO @ Wed, 22 Jul 2020 15:39:39: 14000000 INFO @ Wed, 22 Jul 2020 15:39:42: 22000000 INFO @ Wed, 22 Jul 2020 15:39:44: 10000000 INFO @ Wed, 22 Jul 2020 15:39:46: 15000000 INFO @ Wed, 22 Jul 2020 15:39:48: 23000000 INFO @ Wed, 22 Jul 2020 15:39:51: 11000000 INFO @ Wed, 22 Jul 2020 15:39:53: 16000000 INFO @ Wed, 22 Jul 2020 15:39:54: 24000000 INFO @ Wed, 22 Jul 2020 15:39:58: 12000000 INFO @ Wed, 22 Jul 2020 15:40:00: 25000000 INFO @ Wed, 22 Jul 2020 15:40:00: 17000000 INFO @ Wed, 22 Jul 2020 15:40:05: 13000000 INFO @ Wed, 22 Jul 2020 15:40:06: 26000000 INFO @ Wed, 22 Jul 2020 15:40:07: 18000000 INFO @ Wed, 22 Jul 2020 15:40:12: 27000000 INFO @ Wed, 22 Jul 2020 15:40:12: 14000000 INFO @ Wed, 22 Jul 2020 15:40:14: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:40:18: 28000000 INFO @ Wed, 22 Jul 2020 15:40:19: 15000000 INFO @ Wed, 22 Jul 2020 15:40:21: 20000000 INFO @ Wed, 22 Jul 2020 15:40:24: 29000000 INFO @ Wed, 22 Jul 2020 15:40:26: 16000000 INFO @ Wed, 22 Jul 2020 15:40:28: 21000000 INFO @ Wed, 22 Jul 2020 15:40:30: 30000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:40:33: 17000000 INFO @ Wed, 22 Jul 2020 15:40:35: 22000000 INFO @ Wed, 22 Jul 2020 15:40:36: 31000000 INFO @ Wed, 22 Jul 2020 15:40:40: 18000000 INFO @ Wed, 22 Jul 2020 15:40:42: 32000000 INFO @ Wed, 22 Jul 2020 15:40:42: 23000000 INFO @ Wed, 22 Jul 2020 15:40:47: 19000000 INFO @ Wed, 22 Jul 2020 15:40:48: 33000000 INFO @ Wed, 22 Jul 2020 15:40:49: 24000000 INFO @ Wed, 22 Jul 2020 15:40:54: 34000000 INFO @ Wed, 22 Jul 2020 15:40:54: 20000000 INFO @ Wed, 22 Jul 2020 15:40:56: 25000000 INFO @ Wed, 22 Jul 2020 15:41:00: 35000000 INFO @ Wed, 22 Jul 2020 15:41:01: 21000000 INFO @ Wed, 22 Jul 2020 15:41:03: 26000000 INFO @ Wed, 22 Jul 2020 15:41:06: 36000000 INFO @ Wed, 22 Jul 2020 15:41:07: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:41:07: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:41:07: #1 total tags in treatment: 17880069 INFO @ Wed, 22 Jul 2020 15:41:07: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:41:07: #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 15:41:07: #1 tags after filtering in treatment: 11819833 INFO @ Wed, 22 Jul 2020 15:41:07: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:41:07: #1 finished! INFO @ Wed, 22 Jul 2020 15:41:07: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:41:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:41:08: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:41:08: 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 15:41:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.05_peaks.narrowPeak: No such file or directory INFO @ Wed, 22 Jul 2020 15:41:08: 22000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:41:10: 27000000 INFO @ Wed, 22 Jul 2020 15:41:15: 23000000 INFO @ Wed, 22 Jul 2020 15:41:17: 28000000 INFO @ Wed, 22 Jul 2020 15:41:22: 24000000 INFO @ Wed, 22 Jul 2020 15:41:24: 29000000 INFO @ Wed, 22 Jul 2020 15:41:28: 25000000 INFO @ Wed, 22 Jul 2020 15:41:30: 30000000 INFO @ Wed, 22 Jul 2020 15:41:35: 26000000 INFO @ Wed, 22 Jul 2020 15:41:37: 31000000 INFO @ Wed, 22 Jul 2020 15:41:42: 27000000 INFO @ Wed, 22 Jul 2020 15:41:44: 32000000 INFO @ Wed, 22 Jul 2020 15:41:48: 28000000 INFO @ Wed, 22 Jul 2020 15:41:50: 33000000 INFO @ Wed, 22 Jul 2020 15:41:55: 29000000 INFO @ Wed, 22 Jul 2020 15:41:56: 34000000 INFO @ Wed, 22 Jul 2020 15:42:01: 30000000 INFO @ Wed, 22 Jul 2020 15:42:03: 35000000 INFO @ Wed, 22 Jul 2020 15:42:08: 31000000 INFO @ Wed, 22 Jul 2020 15:42:09: 36000000 INFO @ Wed, 22 Jul 2020 15:42:11: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:42:11: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:42:11: #1 total tags in treatment: 17880069 INFO @ Wed, 22 Jul 2020 15:42:11: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:42:11: #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 15:42:11: #1 tags after filtering in treatment: 11819833 INFO @ Wed, 22 Jul 2020 15:42:11: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:42:11: #1 finished! INFO @ Wed, 22 Jul 2020 15:42:11: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:42:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:42:12: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:42:12: 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 15:42:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.10_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/sacCer3/SRX8639461/SRX8639461.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:42:14: 32000000 INFO @ Wed, 22 Jul 2020 15:42:20: 33000000 INFO @ Wed, 22 Jul 2020 15:42:26: 34000000 INFO @ Wed, 22 Jul 2020 15:42:32: 35000000 INFO @ Wed, 22 Jul 2020 15:42:38: 36000000 INFO @ Wed, 22 Jul 2020 15:42:39: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:42:39: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:42:39: #1 total tags in treatment: 17880069 INFO @ Wed, 22 Jul 2020 15:42:39: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:42:39: #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 15:42:40: #1 tags after filtering in treatment: 11819833 INFO @ Wed, 22 Jul 2020 15:42:40: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 15:42:40: #1 finished! INFO @ Wed, 22 Jul 2020 15:42:40: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:42:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:42:40: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:42:40: 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 15:42:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.20_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/SRX8639461/SRX8639461.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639461/SRX8639461.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling