Job ID = 7115862 SRX = SRX8639463 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:13:24 prefetch.2.10.7: 1) Downloading 'SRR12117035'... 2020-07-22T06:13:24 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:16:03 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:16:03 prefetch.2.10.7: 1) 'SRR12117035' was downloaded successfully 2020-07-22T06:16:03 prefetch.2.10.7: 'SRR12117035' has 0 unresolved dependencies Read 26362592 spots for SRR12117035/SRR12117035.sra Written 26362592 spots for SRR12117035/SRR12117035.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: 00:11:35 26362592 reads; of these: 26362592 (100.00%) were paired; of these: 4667044 (17.70%) aligned concordantly 0 times 19219887 (72.91%) aligned concordantly exactly 1 time 2475661 (9.39%) aligned concordantly >1 times ---- 4667044 pairs aligned concordantly 0 times; of these: 148134 (3.17%) aligned discordantly 1 time ---- 4518910 pairs aligned 0 times concordantly or discordantly; of these: 9037820 mates make up the pairs; of these: 8744676 (96.76%) aligned 0 times 217910 (2.41%) aligned exactly 1 time 75234 (0.83%) aligned >1 times 83.41% overall alignment rate Time searching: 00:11:35 Overall time: 00:11:35 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] 402081 / 21808940 = 0.0184 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 15:39:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.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 15:39:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:39:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:39:16: 1000000 INFO @ Wed, 22 Jul 2020 15:39:21: 2000000 INFO @ Wed, 22 Jul 2020 15:39:25: 3000000 INFO @ Wed, 22 Jul 2020 15:39:29: 4000000 INFO @ Wed, 22 Jul 2020 15:39:34: 5000000 INFO @ Wed, 22 Jul 2020 15:39:38: 6000000 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 15:39:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.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 15:39:42: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:39:42: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:39:43: 7000000 INFO @ Wed, 22 Jul 2020 15:39:47: 1000000 INFO @ Wed, 22 Jul 2020 15:39:47: 8000000 INFO @ Wed, 22 Jul 2020 15:39:52: 9000000 INFO @ Wed, 22 Jul 2020 15:39:52: 2000000 INFO @ Wed, 22 Jul 2020 15:39:57: 10000000 INFO @ Wed, 22 Jul 2020 15:39:58: 3000000 INFO @ Wed, 22 Jul 2020 15:40:01: 11000000 INFO @ Wed, 22 Jul 2020 15:40:03: 4000000 INFO @ Wed, 22 Jul 2020 15:40:06: 12000000 INFO @ Wed, 22 Jul 2020 15:40:08: 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 15:40:11: 13000000 INFO @ Wed, 22 Jul 2020 15:40:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.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 15:40:12: #1 read tag files... INFO @ Wed, 22 Jul 2020 15:40:12: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 15:40:14: 6000000 INFO @ Wed, 22 Jul 2020 15:40:15: 14000000 INFO @ Wed, 22 Jul 2020 15:40:17: 1000000 INFO @ Wed, 22 Jul 2020 15:40:19: 7000000 INFO @ Wed, 22 Jul 2020 15:40:20: 15000000 INFO @ Wed, 22 Jul 2020 15:40:22: 2000000 INFO @ Wed, 22 Jul 2020 15:40:24: 8000000 INFO @ Wed, 22 Jul 2020 15:40:25: 16000000 INFO @ Wed, 22 Jul 2020 15:40:26: 3000000 INFO @ Wed, 22 Jul 2020 15:40:29: 17000000 INFO @ Wed, 22 Jul 2020 15:40:30: 9000000 INFO @ Wed, 22 Jul 2020 15:40:31: 4000000 INFO @ Wed, 22 Jul 2020 15:40:34: 18000000 INFO @ Wed, 22 Jul 2020 15:40:35: 10000000 INFO @ Wed, 22 Jul 2020 15:40:36: 5000000 INFO @ Wed, 22 Jul 2020 15:40:39: 19000000 INFO @ Wed, 22 Jul 2020 15:40:41: 6000000 INFO @ Wed, 22 Jul 2020 15:40:41: 11000000 INFO @ Wed, 22 Jul 2020 15:40:43: 20000000 INFO @ Wed, 22 Jul 2020 15:40:45: 7000000 INFO @ Wed, 22 Jul 2020 15:40:46: 12000000 INFO @ Wed, 22 Jul 2020 15:40:48: 21000000 INFO @ Wed, 22 Jul 2020 15:40:50: 8000000 INFO @ Wed, 22 Jul 2020 15:40:51: 13000000 INFO @ Wed, 22 Jul 2020 15:40:52: 22000000 INFO @ Wed, 22 Jul 2020 15:40:55: 9000000 INFO @ Wed, 22 Jul 2020 15:40:56: 14000000 INFO @ Wed, 22 Jul 2020 15:40:57: 23000000 INFO @ Wed, 22 Jul 2020 15:41:00: 10000000 INFO @ Wed, 22 Jul 2020 15:41:01: 15000000 INFO @ Wed, 22 Jul 2020 15:41:02: 24000000 INFO @ Wed, 22 Jul 2020 15:41:04: 11000000 INFO @ Wed, 22 Jul 2020 15:41:07: 16000000 INFO @ Wed, 22 Jul 2020 15:41:07: 25000000 INFO @ Wed, 22 Jul 2020 15:41:09: 12000000 INFO @ Wed, 22 Jul 2020 15:41:11: 26000000 INFO @ Wed, 22 Jul 2020 15:41:12: 17000000 INFO @ Wed, 22 Jul 2020 15:41:13: 13000000 INFO @ Wed, 22 Jul 2020 15:41:16: 27000000 INFO @ Wed, 22 Jul 2020 15:41:17: 18000000 INFO @ Wed, 22 Jul 2020 15:41:18: 14000000 INFO @ Wed, 22 Jul 2020 15:41:21: 28000000 INFO @ Wed, 22 Jul 2020 15:41:21: 19000000 INFO @ Wed, 22 Jul 2020 15:41:23: 15000000 INFO @ Wed, 22 Jul 2020 15:41:25: 29000000 INFO @ Wed, 22 Jul 2020 15:41:26: 20000000 INFO @ Wed, 22 Jul 2020 15:41:27: 16000000 INFO @ Wed, 22 Jul 2020 15:41:30: 30000000 INFO @ Wed, 22 Jul 2020 15:41:30: 21000000 INFO @ Wed, 22 Jul 2020 15:41:32: 17000000 INFO @ Wed, 22 Jul 2020 15:41:35: 22000000 INFO @ Wed, 22 Jul 2020 15:41:35: 31000000 INFO @ Wed, 22 Jul 2020 15:41:36: 18000000 INFO @ Wed, 22 Jul 2020 15:41:39: 23000000 INFO @ Wed, 22 Jul 2020 15:41:40: 32000000 INFO @ Wed, 22 Jul 2020 15:41:41: 19000000 INFO @ Wed, 22 Jul 2020 15:41:44: 24000000 INFO @ Wed, 22 Jul 2020 15:41:44: 33000000 INFO @ Wed, 22 Jul 2020 15:41:45: 20000000 INFO @ Wed, 22 Jul 2020 15:41:49: 25000000 INFO @ Wed, 22 Jul 2020 15:41:49: 34000000 INFO @ Wed, 22 Jul 2020 15:41:50: 21000000 INFO @ Wed, 22 Jul 2020 15:41:53: 26000000 INFO @ Wed, 22 Jul 2020 15:41:53: 35000000 INFO @ Wed, 22 Jul 2020 15:41:55: 22000000 INFO @ Wed, 22 Jul 2020 15:41:58: 27000000 INFO @ Wed, 22 Jul 2020 15:41:58: 36000000 INFO @ Wed, 22 Jul 2020 15:41:59: 23000000 INFO @ Wed, 22 Jul 2020 15:42:02: 28000000 INFO @ Wed, 22 Jul 2020 15:42:03: 37000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 15:42:04: 24000000 INFO @ Wed, 22 Jul 2020 15:42:07: 29000000 INFO @ Wed, 22 Jul 2020 15:42:07: 38000000 INFO @ Wed, 22 Jul 2020 15:42:08: 25000000 INFO @ Wed, 22 Jul 2020 15:42:12: 30000000 INFO @ Wed, 22 Jul 2020 15:42:12: 39000000 INFO @ Wed, 22 Jul 2020 15:42:13: 26000000 INFO @ Wed, 22 Jul 2020 15:42:16: 40000000 INFO @ Wed, 22 Jul 2020 15:42:16: 31000000 INFO @ Wed, 22 Jul 2020 15:42:17: 27000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 15:42:21: 41000000 INFO @ Wed, 22 Jul 2020 15:42:21: 32000000 INFO @ Wed, 22 Jul 2020 15:42:22: 28000000 INFO @ Wed, 22 Jul 2020 15:42:25: 42000000 INFO @ Wed, 22 Jul 2020 15:42:25: 33000000 INFO @ Wed, 22 Jul 2020 15:42:27: 29000000 INFO @ Wed, 22 Jul 2020 15:42:30: 43000000 INFO @ Wed, 22 Jul 2020 15:42:30: 34000000 INFO @ Wed, 22 Jul 2020 15:42:31: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:42:31: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:42:31: #1 total tags in treatment: 21293595 INFO @ Wed, 22 Jul 2020 15:42:31: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:42:31: #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 15:42:31: 30000000 INFO @ Wed, 22 Jul 2020 15:42:31: #1 tags after filtering in treatment: 13291789 INFO @ Wed, 22 Jul 2020 15:42:31: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Jul 2020 15:42:31: #1 finished! INFO @ Wed, 22 Jul 2020 15:42:31: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:42:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:42:32: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:42:32: 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 15:42:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.05_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/SRX8639463/SRX8639463.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:42:35: 35000000 INFO @ Wed, 22 Jul 2020 15:42:36: 31000000 INFO @ Wed, 22 Jul 2020 15:42:39: 36000000 INFO @ Wed, 22 Jul 2020 15:42:40: 32000000 INFO @ Wed, 22 Jul 2020 15:42:44: 37000000 INFO @ Wed, 22 Jul 2020 15:42:45: 33000000 INFO @ Wed, 22 Jul 2020 15:42:48: 38000000 INFO @ Wed, 22 Jul 2020 15:42:49: 34000000 INFO @ Wed, 22 Jul 2020 15:42:52: 39000000 INFO @ Wed, 22 Jul 2020 15:42:54: 35000000 INFO @ Wed, 22 Jul 2020 15:42:57: 40000000 INFO @ Wed, 22 Jul 2020 15:42:58: 36000000 INFO @ Wed, 22 Jul 2020 15:43:01: 41000000 INFO @ Wed, 22 Jul 2020 15:43:03: 37000000 INFO @ Wed, 22 Jul 2020 15:43:06: 42000000 INFO @ Wed, 22 Jul 2020 15:43:07: 38000000 INFO @ Wed, 22 Jul 2020 15:43:10: 43000000 INFO @ Wed, 22 Jul 2020 15:43:11: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:43:11: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:43:11: #1 total tags in treatment: 21293595 INFO @ Wed, 22 Jul 2020 15:43:11: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:43:11: #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 15:43:12: #1 tags after filtering in treatment: 13291789 INFO @ Wed, 22 Jul 2020 15:43:12: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Jul 2020 15:43:12: #1 finished! INFO @ Wed, 22 Jul 2020 15:43:12: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:43:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:43:12: 39000000 INFO @ Wed, 22 Jul 2020 15:43:12: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:43:12: 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 15:43:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.10_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/SRX8639463/SRX8639463.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 15:43:16: 40000000 INFO @ Wed, 22 Jul 2020 15:43:21: 41000000 INFO @ Wed, 22 Jul 2020 15:43:25: 42000000 INFO @ Wed, 22 Jul 2020 15:43:29: 43000000 INFO @ Wed, 22 Jul 2020 15:43:30: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 15:43:30: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 15:43:30: #1 total tags in treatment: 21293595 INFO @ Wed, 22 Jul 2020 15:43:30: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 15:43:30: #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 15:43:31: #1 tags after filtering in treatment: 13291789 INFO @ Wed, 22 Jul 2020 15:43:31: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 22 Jul 2020 15:43:31: #1 finished! INFO @ Wed, 22 Jul 2020 15:43:31: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 15:43:31: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 15:43:31: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 15:43:31: 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 15:43:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.20_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/SRX8639463/SRX8639463.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639463/SRX8639463.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling