Job ID = 5791304 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 30,428,934 reads read : 60,857,868 reads written : 60,857,868 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:16:08 30428934 reads; of these: 30428934 (100.00%) were paired; of these: 480337 (1.58%) aligned concordantly 0 times 26295699 (86.42%) aligned concordantly exactly 1 time 3652898 (12.00%) aligned concordantly >1 times ---- 480337 pairs aligned concordantly 0 times; of these: 48459 (10.09%) aligned discordantly 1 time ---- 431878 pairs aligned 0 times concordantly or discordantly; of these: 863756 mates make up the pairs; of these: 703633 (81.46%) aligned 0 times 117954 (13.66%) aligned exactly 1 time 42169 (4.88%) aligned >1 times 98.84% overall alignment rate Time searching: 00:16:08 Overall time: 00:16:08 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 28 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] 8088258 / 29956861 = 0.2700 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 Apr 2020 10:09:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.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 Apr 2020 10:09:22: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:09:22: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:09:28: 1000000 INFO @ Wed, 22 Apr 2020 10:09:34: 2000000 INFO @ Wed, 22 Apr 2020 10:09:40: 3000000 INFO @ Wed, 22 Apr 2020 10:09:45: 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 Apr 2020 10:09:51: 5000000 INFO @ Wed, 22 Apr 2020 10:09:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.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 Apr 2020 10:09:52: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:09:52: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:09:57: 6000000 INFO @ Wed, 22 Apr 2020 10:09:58: 1000000 INFO @ Wed, 22 Apr 2020 10:10:02: 7000000 INFO @ Wed, 22 Apr 2020 10:10:03: 2000000 INFO @ Wed, 22 Apr 2020 10:10:08: 8000000 INFO @ Wed, 22 Apr 2020 10:10:08: 3000000 INFO @ Wed, 22 Apr 2020 10:10:13: 4000000 INFO @ Wed, 22 Apr 2020 10:10:14: 9000000 INFO @ Wed, 22 Apr 2020 10:10:18: 5000000 INFO @ Wed, 22 Apr 2020 10:10:18: 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 Apr 2020 10:10:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.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 Apr 2020 10:10:22: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:10:22: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:10:23: 11000000 INFO @ Wed, 22 Apr 2020 10:10:23: 6000000 INFO @ Wed, 22 Apr 2020 10:10:27: 12000000 INFO @ Wed, 22 Apr 2020 10:10:28: 7000000 INFO @ Wed, 22 Apr 2020 10:10:28: 1000000 INFO @ Wed, 22 Apr 2020 10:10:32: 13000000 INFO @ Wed, 22 Apr 2020 10:10:33: 8000000 INFO @ Wed, 22 Apr 2020 10:10:34: 2000000 INFO @ Wed, 22 Apr 2020 10:10:37: 14000000 INFO @ Wed, 22 Apr 2020 10:10:38: 9000000 INFO @ Wed, 22 Apr 2020 10:10:40: 3000000 INFO @ Wed, 22 Apr 2020 10:10:41: 15000000 INFO @ Wed, 22 Apr 2020 10:10:42: 10000000 INFO @ Wed, 22 Apr 2020 10:10:45: 4000000 INFO @ Wed, 22 Apr 2020 10:10:46: 16000000 INFO @ Wed, 22 Apr 2020 10:10:47: 11000000 INFO @ Wed, 22 Apr 2020 10:10:50: 17000000 INFO @ Wed, 22 Apr 2020 10:10:51: 5000000 INFO @ Wed, 22 Apr 2020 10:10:52: 12000000 INFO @ Wed, 22 Apr 2020 10:10:55: 18000000 INFO @ Wed, 22 Apr 2020 10:10:57: 13000000 INFO @ Wed, 22 Apr 2020 10:10:57: 6000000 INFO @ Wed, 22 Apr 2020 10:11:00: 19000000 INFO @ Wed, 22 Apr 2020 10:11:02: 14000000 INFO @ Wed, 22 Apr 2020 10:11:03: 7000000 INFO @ Wed, 22 Apr 2020 10:11:04: 20000000 INFO @ Wed, 22 Apr 2020 10:11:07: 15000000 INFO @ Wed, 22 Apr 2020 10:11:08: 8000000 INFO @ Wed, 22 Apr 2020 10:11:09: 21000000 INFO @ Wed, 22 Apr 2020 10:11:11: 16000000 INFO @ Wed, 22 Apr 2020 10:11:14: 22000000 INFO @ Wed, 22 Apr 2020 10:11:14: 9000000 INFO @ Wed, 22 Apr 2020 10:11:16: 17000000 INFO @ Wed, 22 Apr 2020 10:11:18: 23000000 INFO @ Wed, 22 Apr 2020 10:11:19: 10000000 INFO @ Wed, 22 Apr 2020 10:11:21: 18000000 INFO @ Wed, 22 Apr 2020 10:11:23: 24000000 INFO @ Wed, 22 Apr 2020 10:11:25: 11000000 INFO @ Wed, 22 Apr 2020 10:11:26: 19000000 INFO @ Wed, 22 Apr 2020 10:11:28: 25000000 INFO @ Wed, 22 Apr 2020 10:11:30: 12000000 INFO @ Wed, 22 Apr 2020 10:11:31: 20000000 INFO @ Wed, 22 Apr 2020 10:11:32: 26000000 INFO @ Wed, 22 Apr 2020 10:11:35: 21000000 INFO @ Wed, 22 Apr 2020 10:11:36: 13000000 INFO @ Wed, 22 Apr 2020 10:11:37: 27000000 INFO @ Wed, 22 Apr 2020 10:11:40: 22000000 INFO @ Wed, 22 Apr 2020 10:11:41: 28000000 INFO @ Wed, 22 Apr 2020 10:11:41: 14000000 INFO @ Wed, 22 Apr 2020 10:11:45: 23000000 INFO @ Wed, 22 Apr 2020 10:11:46: 29000000 INFO @ Wed, 22 Apr 2020 10:11:47: 15000000 INFO @ Wed, 22 Apr 2020 10:11:50: 24000000 INFO @ Wed, 22 Apr 2020 10:11:51: 30000000 INFO @ Wed, 22 Apr 2020 10:11:52: 16000000 INFO @ Wed, 22 Apr 2020 10:11:55: 25000000 INFO @ Wed, 22 Apr 2020 10:11:55: 31000000 INFO @ Wed, 22 Apr 2020 10:11:58: 17000000 INFO @ Wed, 22 Apr 2020 10:12:00: 26000000 INFO @ Wed, 22 Apr 2020 10:12:00: 32000000 INFO @ Wed, 22 Apr 2020 10:12:03: 18000000 INFO @ Wed, 22 Apr 2020 10:12:04: 27000000 INFO @ Wed, 22 Apr 2020 10:12:04: 33000000 INFO @ Wed, 22 Apr 2020 10:12:09: 19000000 INFO @ Wed, 22 Apr 2020 10:12:09: 34000000 INFO @ Wed, 22 Apr 2020 10:12:09: 28000000 INFO @ Wed, 22 Apr 2020 10:12:14: 35000000 INFO @ Wed, 22 Apr 2020 10:12:14: 29000000 INFO @ Wed, 22 Apr 2020 10:12:14: 20000000 INFO @ Wed, 22 Apr 2020 10:12:19: 21000000 INFO @ Wed, 22 Apr 2020 10:12:19: 30000000 INFO @ Wed, 22 Apr 2020 10:12:20: 36000000 INFO @ Wed, 22 Apr 2020 10:12:23: 22000000 INFO @ Wed, 22 Apr 2020 10:12:23: 31000000 INFO @ Wed, 22 Apr 2020 10:12:25: 37000000 INFO @ Wed, 22 Apr 2020 10:12:28: 23000000 INFO @ Wed, 22 Apr 2020 10:12:28: 32000000 INFO @ Wed, 22 Apr 2020 10:12:32: 38000000 INFO @ Wed, 22 Apr 2020 10:12:32: 24000000 INFO @ Wed, 22 Apr 2020 10:12:33: 33000000 INFO @ Wed, 22 Apr 2020 10:12:37: 25000000 INFO @ Wed, 22 Apr 2020 10:12:37: 34000000 INFO @ Wed, 22 Apr 2020 10:12:39: 39000000 INFO @ Wed, 22 Apr 2020 10:12:42: 26000000 INFO @ Wed, 22 Apr 2020 10:12:42: 35000000 INFO @ Wed, 22 Apr 2020 10:12:46: 40000000 INFO @ Wed, 22 Apr 2020 10:12:46: 27000000 INFO @ Wed, 22 Apr 2020 10:12:47: 36000000 INFO @ Wed, 22 Apr 2020 10:12:51: 41000000 INFO @ Wed, 22 Apr 2020 10:12:51: 28000000 INFO @ Wed, 22 Apr 2020 10:12:51: 37000000 INFO @ Wed, 22 Apr 2020 10:12:56: 29000000 INFO @ Wed, 22 Apr 2020 10:12:56: 42000000 INFO @ Wed, 22 Apr 2020 10:12:56: 38000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:13:00: 30000000 INFO @ Wed, 22 Apr 2020 10:13:01: 43000000 INFO @ Wed, 22 Apr 2020 10:13:01: 39000000 INFO @ Wed, 22 Apr 2020 10:13:05: 31000000 INFO @ Wed, 22 Apr 2020 10:13:06: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:13:06: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:13:06: #1 total tags in treatment: 21861826 INFO @ Wed, 22 Apr 2020 10:13:06: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:13:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 10:13:06: 40000000 INFO @ Wed, 22 Apr 2020 10:13:06: #1 tags after filtering in treatment: 13143619 INFO @ Wed, 22 Apr 2020 10:13:06: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Apr 2020 10:13:06: #1 finished! INFO @ Wed, 22 Apr 2020 10:13:06: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:13:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:13:07: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:13:07: 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 Apr 2020 10:13:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.05_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/SRX7409560/SRX7409560.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:13:09: 32000000 INFO @ Wed, 22 Apr 2020 10:13:11: 41000000 INFO @ Wed, 22 Apr 2020 10:13:14: 33000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:13:16: 42000000 INFO @ Wed, 22 Apr 2020 10:13:19: 34000000 INFO @ Wed, 22 Apr 2020 10:13:21: 43000000 INFO @ Wed, 22 Apr 2020 10:13:23: 35000000 INFO @ Wed, 22 Apr 2020 10:13:26: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:13:26: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:13:26: #1 total tags in treatment: 21861826 INFO @ Wed, 22 Apr 2020 10:13:26: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:13:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 10:13:27: #1 tags after filtering in treatment: 13143619 INFO @ Wed, 22 Apr 2020 10:13:27: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Apr 2020 10:13:27: #1 finished! INFO @ Wed, 22 Apr 2020 10:13:27: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:13:27: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:13:27: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:13:27: 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 Apr 2020 10:13:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.10_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/SRX7409560/SRX7409560.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:13:28: 36000000 INFO @ Wed, 22 Apr 2020 10:13:33: 37000000 INFO @ Wed, 22 Apr 2020 10:13:37: 38000000 INFO @ Wed, 22 Apr 2020 10:13:42: 39000000 INFO @ Wed, 22 Apr 2020 10:13:47: 40000000 INFO @ Wed, 22 Apr 2020 10:13:52: 41000000 INFO @ Wed, 22 Apr 2020 10:13:57: 42000000 INFO @ Wed, 22 Apr 2020 10:14:01: 43000000 INFO @ Wed, 22 Apr 2020 10:14:06: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:14:06: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:14:06: #1 total tags in treatment: 21861826 INFO @ Wed, 22 Apr 2020 10:14:06: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:14:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 10:14:07: #1 tags after filtering in treatment: 13143619 INFO @ Wed, 22 Apr 2020 10:14:07: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Apr 2020 10:14:07: #1 finished! INFO @ Wed, 22 Apr 2020 10:14:07: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:14:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:14:07: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:14:07: 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 Apr 2020 10:14:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.20_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/SRX7409560/SRX7409560.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409560/SRX7409560.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling