Job ID = 7118275 SRX = SRX8639589 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T07:14:04 prefetch.2.10.7: 1) Downloading 'SRR12117027'... 2020-07-22T07:14:04 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T07:19:52 prefetch.2.10.7: HTTPS download succeed 2020-07-22T07:19:52 prefetch.2.10.7: 1) 'SRR12117027' was downloaded successfully 2020-07-22T07:19:52 prefetch.2.10.7: 'SRR12117027' has 0 unresolved dependencies Read 28167752 spots for SRR12117027/SRR12117027.sra Written 28167752 spots for SRR12117027/SRR12117027.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: 00:14:27 28167752 reads; of these: 28167752 (100.00%) were paired; of these: 4171650 (14.81%) aligned concordantly 0 times 21051145 (74.73%) aligned concordantly exactly 1 time 2944957 (10.46%) aligned concordantly >1 times ---- 4171650 pairs aligned concordantly 0 times; of these: 327923 (7.86%) aligned discordantly 1 time ---- 3843727 pairs aligned 0 times concordantly or discordantly; of these: 7687454 mates make up the pairs; of these: 7319564 (95.21%) aligned 0 times 239303 (3.11%) aligned exactly 1 time 128587 (1.67%) aligned >1 times 87.01% overall alignment rate Time searching: 00:14:27 Overall time: 00:14:27 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] 506724 / 24295943 = 0.0209 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 16:47:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.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 16:47:04: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:47:04: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:47:09: 1000000 INFO @ Wed, 22 Jul 2020 16:47:13: 2000000 INFO @ Wed, 22 Jul 2020 16:47:18: 3000000 INFO @ Wed, 22 Jul 2020 16:47:23: 4000000 INFO @ Wed, 22 Jul 2020 16:47:28: 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 16:47:32: 6000000 INFO @ Wed, 22 Jul 2020 16:47:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.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 16:47:34: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:47:34: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:47:37: 7000000 INFO @ Wed, 22 Jul 2020 16:47:38: 1000000 INFO @ Wed, 22 Jul 2020 16:47:42: 8000000 INFO @ Wed, 22 Jul 2020 16:47:43: 2000000 INFO @ Wed, 22 Jul 2020 16:47:47: 9000000 INFO @ Wed, 22 Jul 2020 16:47:48: 3000000 INFO @ Wed, 22 Jul 2020 16:47:51: 10000000 INFO @ Wed, 22 Jul 2020 16:47:53: 4000000 INFO @ Wed, 22 Jul 2020 16:47:56: 11000000 INFO @ Wed, 22 Jul 2020 16:47:58: 5000000 INFO @ Wed, 22 Jul 2020 16:48:01: 12000000 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 16:48:03: 6000000 INFO @ Wed, 22 Jul 2020 16:48:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.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 16:48:04: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:48:04: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:48:06: 13000000 INFO @ Wed, 22 Jul 2020 16:48:08: 7000000 INFO @ Wed, 22 Jul 2020 16:48:08: 1000000 INFO @ Wed, 22 Jul 2020 16:48:10: 14000000 INFO @ Wed, 22 Jul 2020 16:48:13: 8000000 INFO @ Wed, 22 Jul 2020 16:48:13: 2000000 INFO @ Wed, 22 Jul 2020 16:48:15: 15000000 INFO @ Wed, 22 Jul 2020 16:48:17: 9000000 INFO @ Wed, 22 Jul 2020 16:48:18: 3000000 INFO @ Wed, 22 Jul 2020 16:48:20: 16000000 INFO @ Wed, 22 Jul 2020 16:48:22: 10000000 INFO @ Wed, 22 Jul 2020 16:48:23: 4000000 INFO @ Wed, 22 Jul 2020 16:48:25: 17000000 INFO @ Wed, 22 Jul 2020 16:48:27: 11000000 INFO @ Wed, 22 Jul 2020 16:48:28: 5000000 INFO @ Wed, 22 Jul 2020 16:48:30: 18000000 INFO @ Wed, 22 Jul 2020 16:48:32: 12000000 INFO @ Wed, 22 Jul 2020 16:48:33: 6000000 INFO @ Wed, 22 Jul 2020 16:48:35: 19000000 INFO @ Wed, 22 Jul 2020 16:48:37: 13000000 INFO @ Wed, 22 Jul 2020 16:48:38: 7000000 INFO @ Wed, 22 Jul 2020 16:48:40: 20000000 INFO @ Wed, 22 Jul 2020 16:48:42: 14000000 INFO @ Wed, 22 Jul 2020 16:48:43: 8000000 INFO @ Wed, 22 Jul 2020 16:48:45: 21000000 INFO @ Wed, 22 Jul 2020 16:48:47: 15000000 INFO @ Wed, 22 Jul 2020 16:48:48: 9000000 INFO @ Wed, 22 Jul 2020 16:48:50: 22000000 INFO @ Wed, 22 Jul 2020 16:48:51: 16000000 INFO @ Wed, 22 Jul 2020 16:48:52: 10000000 INFO @ Wed, 22 Jul 2020 16:48:55: 23000000 INFO @ Wed, 22 Jul 2020 16:48:56: 17000000 INFO @ Wed, 22 Jul 2020 16:48:57: 11000000 INFO @ Wed, 22 Jul 2020 16:49:00: 24000000 INFO @ Wed, 22 Jul 2020 16:49:01: 18000000 INFO @ Wed, 22 Jul 2020 16:49:02: 12000000 INFO @ Wed, 22 Jul 2020 16:49:04: 25000000 INFO @ Wed, 22 Jul 2020 16:49:06: 19000000 INFO @ Wed, 22 Jul 2020 16:49:07: 13000000 INFO @ Wed, 22 Jul 2020 16:49:09: 26000000 INFO @ Wed, 22 Jul 2020 16:49:11: 20000000 INFO @ Wed, 22 Jul 2020 16:49:12: 14000000 INFO @ Wed, 22 Jul 2020 16:49:14: 27000000 INFO @ Wed, 22 Jul 2020 16:49:16: 21000000 INFO @ Wed, 22 Jul 2020 16:49:17: 15000000 INFO @ Wed, 22 Jul 2020 16:49:19: 28000000 INFO @ Wed, 22 Jul 2020 16:49:22: 22000000 INFO @ Wed, 22 Jul 2020 16:49:22: 16000000 INFO @ Wed, 22 Jul 2020 16:49:24: 29000000 INFO @ Wed, 22 Jul 2020 16:49:26: 23000000 INFO @ Wed, 22 Jul 2020 16:49:27: 17000000 INFO @ Wed, 22 Jul 2020 16:49:29: 30000000 INFO @ Wed, 22 Jul 2020 16:49:31: 24000000 INFO @ Wed, 22 Jul 2020 16:49:32: 18000000 INFO @ Wed, 22 Jul 2020 16:49:34: 31000000 INFO @ Wed, 22 Jul 2020 16:49:36: 25000000 INFO @ Wed, 22 Jul 2020 16:49:37: 19000000 INFO @ Wed, 22 Jul 2020 16:49:40: 32000000 INFO @ Wed, 22 Jul 2020 16:49:41: 26000000 INFO @ Wed, 22 Jul 2020 16:49:42: 20000000 INFO @ Wed, 22 Jul 2020 16:49:45: 33000000 INFO @ Wed, 22 Jul 2020 16:49:46: 27000000 INFO @ Wed, 22 Jul 2020 16:49:47: 21000000 INFO @ Wed, 22 Jul 2020 16:49:50: 34000000 INFO @ Wed, 22 Jul 2020 16:49:51: 28000000 INFO @ Wed, 22 Jul 2020 16:49:52: 22000000 INFO @ Wed, 22 Jul 2020 16:49:55: 35000000 INFO @ Wed, 22 Jul 2020 16:49:56: 29000000 INFO @ Wed, 22 Jul 2020 16:49:57: 23000000 INFO @ Wed, 22 Jul 2020 16:50:00: 36000000 INFO @ Wed, 22 Jul 2020 16:50:02: 30000000 INFO @ Wed, 22 Jul 2020 16:50:02: 24000000 INFO @ Wed, 22 Jul 2020 16:50:05: 37000000 INFO @ Wed, 22 Jul 2020 16:50:07: 31000000 INFO @ Wed, 22 Jul 2020 16:50:07: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:50:10: 38000000 INFO @ Wed, 22 Jul 2020 16:50:12: 32000000 INFO @ Wed, 22 Jul 2020 16:50:12: 26000000 INFO @ Wed, 22 Jul 2020 16:50:15: 39000000 INFO @ Wed, 22 Jul 2020 16:50:17: 33000000 INFO @ Wed, 22 Jul 2020 16:50:17: 27000000 INFO @ Wed, 22 Jul 2020 16:50:20: 40000000 INFO @ Wed, 22 Jul 2020 16:50:22: 34000000 INFO @ Wed, 22 Jul 2020 16:50:23: 28000000 INFO @ Wed, 22 Jul 2020 16:50:25: 41000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:50:27: 35000000 INFO @ Wed, 22 Jul 2020 16:50:28: 29000000 INFO @ Wed, 22 Jul 2020 16:50:30: 42000000 INFO @ Wed, 22 Jul 2020 16:50:32: 36000000 INFO @ Wed, 22 Jul 2020 16:50:33: 30000000 INFO @ Wed, 22 Jul 2020 16:50:35: 43000000 INFO @ Wed, 22 Jul 2020 16:50:37: 37000000 INFO @ Wed, 22 Jul 2020 16:50:38: 31000000 INFO @ Wed, 22 Jul 2020 16:50:40: 44000000 INFO @ Wed, 22 Jul 2020 16:50:42: 38000000 INFO @ Wed, 22 Jul 2020 16:50:43: 32000000 INFO @ Wed, 22 Jul 2020 16:50:45: 45000000 INFO @ Wed, 22 Jul 2020 16:50:47: 39000000 INFO @ Wed, 22 Jul 2020 16:50:48: 33000000 INFO @ Wed, 22 Jul 2020 16:50:50: 46000000 INFO @ Wed, 22 Jul 2020 16:50:52: 40000000 INFO @ Wed, 22 Jul 2020 16:50:53: 34000000 INFO @ Wed, 22 Jul 2020 16:50:55: 47000000 INFO @ Wed, 22 Jul 2020 16:50:57: 41000000 INFO @ Wed, 22 Jul 2020 16:50:58: 35000000 INFO @ Wed, 22 Jul 2020 16:51:00: 48000000 INFO @ Wed, 22 Jul 2020 16:51:00: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:51:00: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:51:00: #1 total tags in treatment: 23489835 INFO @ Wed, 22 Jul 2020 16:51:00: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:51:00: #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 16:51:01: #1 tags after filtering in treatment: 14041456 INFO @ Wed, 22 Jul 2020 16:51:01: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Jul 2020 16:51:01: #1 finished! INFO @ Wed, 22 Jul 2020 16:51:01: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:51:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:51:02: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:51:02: 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 16:51:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.05_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/SRX8639589/SRX8639589.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:51:03: 42000000 INFO @ Wed, 22 Jul 2020 16:51:04: 36000000 INFO @ Wed, 22 Jul 2020 16:51:08: 43000000 INFO @ Wed, 22 Jul 2020 16:51:09: 37000000 INFO @ Wed, 22 Jul 2020 16:51:13: 44000000 INFO @ Wed, 22 Jul 2020 16:51:14: 38000000 INFO @ Wed, 22 Jul 2020 16:51:18: 45000000 INFO @ Wed, 22 Jul 2020 16:51:19: 39000000 INFO @ Wed, 22 Jul 2020 16:51:23: 46000000 INFO @ Wed, 22 Jul 2020 16:51:24: 40000000 INFO @ Wed, 22 Jul 2020 16:51:28: 47000000 INFO @ Wed, 22 Jul 2020 16:51:29: 41000000 INFO @ Wed, 22 Jul 2020 16:51:33: 48000000 INFO @ Wed, 22 Jul 2020 16:51:33: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:51:33: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:51:33: #1 total tags in treatment: 23489835 INFO @ Wed, 22 Jul 2020 16:51:33: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:51:33: #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 16:51:34: #1 tags after filtering in treatment: 14041456 INFO @ Wed, 22 Jul 2020 16:51:34: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Jul 2020 16:51:34: #1 finished! INFO @ Wed, 22 Jul 2020 16:51:34: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:51:34: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:51:34: 42000000 INFO @ Wed, 22 Jul 2020 16:51:34: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:51:34: 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 16:51:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.10_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/SRX8639589/SRX8639589.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:51:39: 43000000 INFO @ Wed, 22 Jul 2020 16:51:44: 44000000 INFO @ Wed, 22 Jul 2020 16:51:49: 45000000 INFO @ Wed, 22 Jul 2020 16:51:54: 46000000 INFO @ Wed, 22 Jul 2020 16:52:00: 47000000 INFO @ Wed, 22 Jul 2020 16:52:05: 48000000 INFO @ Wed, 22 Jul 2020 16:52:05: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:52:05: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:52:05: #1 total tags in treatment: 23489835 INFO @ Wed, 22 Jul 2020 16:52:05: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:52:05: #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 16:52:05: #1 tags after filtering in treatment: 14041456 INFO @ Wed, 22 Jul 2020 16:52:05: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Jul 2020 16:52:05: #1 finished! INFO @ Wed, 22 Jul 2020 16:52:05: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:52:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:52:06: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:52:06: 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 @ Wed, 22 Jul 2020 16:52:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.20_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/SRX8639589/SRX8639589.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639589/SRX8639589.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling