Job ID = 7117727 SRX = SRX8639551 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-22T06:44:08 prefetch.2.10.7: 1) Downloading 'SRR12116989'... 2020-07-22T06:44:08 prefetch.2.10.7: Downloading via HTTPS... 2020-07-22T06:46:11 prefetch.2.10.7: HTTPS download succeed 2020-07-22T06:46:11 prefetch.2.10.7: 1) 'SRR12116989' was downloaded successfully 2020-07-22T06:46:11 prefetch.2.10.7: 'SRR12116989' has 0 unresolved dependencies Read 22104826 spots for SRR12116989/SRR12116989.sra Written 22104826 spots for SRR12116989/SRR12116989.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: 00:11:02 22104826 reads; of these: 22104826 (100.00%) were paired; of these: 3091218 (13.98%) aligned concordantly 0 times 16682072 (75.47%) aligned concordantly exactly 1 time 2331536 (10.55%) aligned concordantly >1 times ---- 3091218 pairs aligned concordantly 0 times; of these: 213205 (6.90%) aligned discordantly 1 time ---- 2878013 pairs aligned 0 times concordantly or discordantly; of these: 5756026 mates make up the pairs; of these: 5440837 (94.52%) aligned 0 times 214789 (3.73%) aligned exactly 1 time 100400 (1.74%) aligned >1 times 87.69% overall alignment rate Time searching: 00:11:02 Overall time: 00:11:02 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] 341911 / 19201275 = 0.0178 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 16:06:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.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 16:06:59: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:06:59: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:07:04: 1000000 INFO @ Wed, 22 Jul 2020 16:07:08: 2000000 INFO @ Wed, 22 Jul 2020 16:07:13: 3000000 INFO @ Wed, 22 Jul 2020 16:07:18: 4000000 INFO @ Wed, 22 Jul 2020 16:07:23: 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 16:07:28: 6000000 INFO @ Wed, 22 Jul 2020 16:07:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.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 16:07:29: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:07:29: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:07:33: 7000000 INFO @ Wed, 22 Jul 2020 16:07:34: 1000000 INFO @ Wed, 22 Jul 2020 16:07:38: 8000000 INFO @ Wed, 22 Jul 2020 16:07:39: 2000000 INFO @ Wed, 22 Jul 2020 16:07:43: 9000000 INFO @ Wed, 22 Jul 2020 16:07:44: 3000000 INFO @ Wed, 22 Jul 2020 16:07:48: 10000000 INFO @ Wed, 22 Jul 2020 16:07:48: 4000000 INFO @ Wed, 22 Jul 2020 16:07:53: 11000000 INFO @ Wed, 22 Jul 2020 16:07:53: 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 16:07:58: 12000000 INFO @ Wed, 22 Jul 2020 16:07:58: 6000000 INFO @ Wed, 22 Jul 2020 16:07:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.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 16:07:59: #1 read tag files... INFO @ Wed, 22 Jul 2020 16:07:59: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 16:08:03: 13000000 INFO @ Wed, 22 Jul 2020 16:08:03: 7000000 INFO @ Wed, 22 Jul 2020 16:08:04: 1000000 INFO @ Wed, 22 Jul 2020 16:08:08: 8000000 INFO @ Wed, 22 Jul 2020 16:08:08: 14000000 INFO @ Wed, 22 Jul 2020 16:08:09: 2000000 INFO @ Wed, 22 Jul 2020 16:08:13: 9000000 INFO @ Wed, 22 Jul 2020 16:08:14: 15000000 INFO @ Wed, 22 Jul 2020 16:08:14: 3000000 INFO @ Wed, 22 Jul 2020 16:08:18: 10000000 INFO @ Wed, 22 Jul 2020 16:08:19: 16000000 INFO @ Wed, 22 Jul 2020 16:08:19: 4000000 INFO @ Wed, 22 Jul 2020 16:08:24: 11000000 INFO @ Wed, 22 Jul 2020 16:08:24: 17000000 INFO @ Wed, 22 Jul 2020 16:08:24: 5000000 INFO @ Wed, 22 Jul 2020 16:08:29: 12000000 INFO @ Wed, 22 Jul 2020 16:08:29: 6000000 INFO @ Wed, 22 Jul 2020 16:08:29: 18000000 INFO @ Wed, 22 Jul 2020 16:08:34: 13000000 INFO @ Wed, 22 Jul 2020 16:08:34: 7000000 INFO @ Wed, 22 Jul 2020 16:08:35: 19000000 INFO @ Wed, 22 Jul 2020 16:08:39: 14000000 INFO @ Wed, 22 Jul 2020 16:08:40: 8000000 INFO @ Wed, 22 Jul 2020 16:08:40: 20000000 INFO @ Wed, 22 Jul 2020 16:08:44: 15000000 INFO @ Wed, 22 Jul 2020 16:08:45: 9000000 INFO @ Wed, 22 Jul 2020 16:08:45: 21000000 INFO @ Wed, 22 Jul 2020 16:08:49: 16000000 INFO @ Wed, 22 Jul 2020 16:08:50: 10000000 INFO @ Wed, 22 Jul 2020 16:08:50: 22000000 INFO @ Wed, 22 Jul 2020 16:08:54: 17000000 INFO @ Wed, 22 Jul 2020 16:08:55: 11000000 INFO @ Wed, 22 Jul 2020 16:08:56: 23000000 INFO @ Wed, 22 Jul 2020 16:08:59: 18000000 INFO @ Wed, 22 Jul 2020 16:09:00: 12000000 INFO @ Wed, 22 Jul 2020 16:09:01: 24000000 INFO @ Wed, 22 Jul 2020 16:09:04: 19000000 INFO @ Wed, 22 Jul 2020 16:09:05: 13000000 INFO @ Wed, 22 Jul 2020 16:09:06: 25000000 INFO @ Wed, 22 Jul 2020 16:09:09: 20000000 INFO @ Wed, 22 Jul 2020 16:09:10: 14000000 INFO @ Wed, 22 Jul 2020 16:09:11: 26000000 INFO @ Wed, 22 Jul 2020 16:09:14: 21000000 INFO @ Wed, 22 Jul 2020 16:09:15: 15000000 INFO @ Wed, 22 Jul 2020 16:09:17: 27000000 INFO @ Wed, 22 Jul 2020 16:09:19: 22000000 INFO @ Wed, 22 Jul 2020 16:09:20: 16000000 INFO @ Wed, 22 Jul 2020 16:09:22: 28000000 INFO @ Wed, 22 Jul 2020 16:09:24: 23000000 INFO @ Wed, 22 Jul 2020 16:09:25: 17000000 INFO @ Wed, 22 Jul 2020 16:09:27: 29000000 INFO @ Wed, 22 Jul 2020 16:09:29: 24000000 INFO @ Wed, 22 Jul 2020 16:09:31: 18000000 INFO @ Wed, 22 Jul 2020 16:09:32: 30000000 INFO @ Wed, 22 Jul 2020 16:09:34: 25000000 INFO @ Wed, 22 Jul 2020 16:09:36: 19000000 INFO @ Wed, 22 Jul 2020 16:09:37: 31000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 16:09:40: 26000000 INFO @ Wed, 22 Jul 2020 16:09:41: 20000000 INFO @ Wed, 22 Jul 2020 16:09:43: 32000000 INFO @ Wed, 22 Jul 2020 16:09:45: 27000000 INFO @ Wed, 22 Jul 2020 16:09:46: 21000000 INFO @ Wed, 22 Jul 2020 16:09:48: 33000000 INFO @ Wed, 22 Jul 2020 16:09:50: 28000000 INFO @ Wed, 22 Jul 2020 16:09:51: 22000000 INFO @ Wed, 22 Jul 2020 16:09:53: 34000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 16:09:55: 29000000 INFO @ Wed, 22 Jul 2020 16:09:56: 23000000 INFO @ Wed, 22 Jul 2020 16:09:58: 35000000 INFO @ Wed, 22 Jul 2020 16:10:00: 30000000 INFO @ Wed, 22 Jul 2020 16:10:01: 24000000 INFO @ Wed, 22 Jul 2020 16:10:03: 36000000 INFO @ Wed, 22 Jul 2020 16:10:05: 31000000 INFO @ Wed, 22 Jul 2020 16:10:06: 25000000 INFO @ Wed, 22 Jul 2020 16:10:09: 37000000 INFO @ Wed, 22 Jul 2020 16:10:10: 32000000 INFO @ Wed, 22 Jul 2020 16:10:11: 26000000 INFO @ Wed, 22 Jul 2020 16:10:14: 38000000 INFO @ Wed, 22 Jul 2020 16:10:14: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:10:14: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:10:14: #1 total tags in treatment: 18671959 INFO @ Wed, 22 Jul 2020 16:10:14: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:10:14: #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 16:10:15: #1 tags after filtering in treatment: 12160523 INFO @ Wed, 22 Jul 2020 16:10:15: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 16:10:15: #1 finished! INFO @ Wed, 22 Jul 2020 16:10:15: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:10:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:10:15: 33000000 INFO @ Wed, 22 Jul 2020 16:10:15: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:10:15: 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 @ Wed, 22 Jul 2020 16:10:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.05_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/sacCer3/SRX8639551/SRX8639551.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:10:17: 27000000 INFO @ Wed, 22 Jul 2020 16:10:20: 34000000 INFO @ Wed, 22 Jul 2020 16:10:22: 28000000 INFO @ Wed, 22 Jul 2020 16:10:25: 35000000 INFO @ Wed, 22 Jul 2020 16:10:27: 29000000 INFO @ Wed, 22 Jul 2020 16:10:30: 36000000 INFO @ Wed, 22 Jul 2020 16:10:32: 30000000 INFO @ Wed, 22 Jul 2020 16:10:35: 37000000 INFO @ Wed, 22 Jul 2020 16:10:37: 31000000 INFO @ Wed, 22 Jul 2020 16:10:40: 38000000 INFO @ Wed, 22 Jul 2020 16:10:40: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:10:40: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:10:40: #1 total tags in treatment: 18671959 INFO @ Wed, 22 Jul 2020 16:10:40: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:10:40: #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 16:10:41: #1 tags after filtering in treatment: 12160523 INFO @ Wed, 22 Jul 2020 16:10:41: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 16:10:41: #1 finished! INFO @ Wed, 22 Jul 2020 16:10:41: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:10:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:10:41: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:10:41: 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 16:10:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 16:10:41: 32000000 INFO @ Wed, 22 Jul 2020 16:10:46: 33000000 INFO @ Wed, 22 Jul 2020 16:10:51: 34000000 INFO @ Wed, 22 Jul 2020 16:10:56: 35000000 INFO @ Wed, 22 Jul 2020 16:11:00: 36000000 INFO @ Wed, 22 Jul 2020 16:11:05: 37000000 INFO @ Wed, 22 Jul 2020 16:11:10: 38000000 INFO @ Wed, 22 Jul 2020 16:11:10: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 16:11:10: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 16:11:10: #1 total tags in treatment: 18671959 INFO @ Wed, 22 Jul 2020 16:11:10: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 16:11:10: #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 16:11:11: #1 tags after filtering in treatment: 12160523 INFO @ Wed, 22 Jul 2020 16:11:11: #1 Redundant rate of treatment: 0.35 INFO @ Wed, 22 Jul 2020 16:11:11: #1 finished! INFO @ Wed, 22 Jul 2020 16:11:11: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 16:11:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 16:11:11: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 16:11:11: 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 16:11:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.20_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/SRX8639551/SRX8639551.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8639551/SRX8639551.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling