Job ID = 5791296 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 34,642,838 reads read : 69,285,676 reads written : 69,285,676 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: 00:17:38 34642838 reads; of these: 34642838 (100.00%) were paired; of these: 1093377 (3.16%) aligned concordantly 0 times 29108926 (84.03%) aligned concordantly exactly 1 time 4440535 (12.82%) aligned concordantly >1 times ---- 1093377 pairs aligned concordantly 0 times; of these: 97130 (8.88%) aligned discordantly 1 time ---- 996247 pairs aligned 0 times concordantly or discordantly; of these: 1992494 mates make up the pairs; of these: 1762213 (88.44%) aligned 0 times 165722 (8.32%) aligned exactly 1 time 64559 (3.24%) aligned >1 times 97.46% overall alignment rate Time searching: 00:17:38 Overall time: 00:17:38 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] 6983844 / 33562357 = 0.2081 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 10:12:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.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 10:12:23: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:12:23: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:12:27: 1000000 INFO @ Wed, 22 Apr 2020 10:12:32: 2000000 INFO @ Wed, 22 Apr 2020 10:12:36: 3000000 INFO @ Wed, 22 Apr 2020 10:12:40: 4000000 INFO @ Wed, 22 Apr 2020 10:12:44: 5000000 INFO @ Wed, 22 Apr 2020 10:12:49: 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 Apr 2020 10:12:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.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 10:12:52: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:12:52: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:12:53: 7000000 INFO @ Wed, 22 Apr 2020 10:12:56: 1000000 INFO @ Wed, 22 Apr 2020 10:12:57: 8000000 INFO @ Wed, 22 Apr 2020 10:13:01: 2000000 INFO @ Wed, 22 Apr 2020 10:13:02: 9000000 INFO @ Wed, 22 Apr 2020 10:13:05: 3000000 INFO @ Wed, 22 Apr 2020 10:13:06: 10000000 INFO @ Wed, 22 Apr 2020 10:13:10: 4000000 INFO @ Wed, 22 Apr 2020 10:13:10: 11000000 INFO @ Wed, 22 Apr 2020 10:13:14: 5000000 INFO @ Wed, 22 Apr 2020 10:13:15: 12000000 INFO @ Wed, 22 Apr 2020 10:13:18: 6000000 INFO @ Wed, 22 Apr 2020 10:13:19: 13000000 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 10:13:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.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 10:13:22: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:13:22: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:13:23: 7000000 INFO @ Wed, 22 Apr 2020 10:13:23: 14000000 INFO @ Wed, 22 Apr 2020 10:13:26: 1000000 INFO @ Wed, 22 Apr 2020 10:13:27: 8000000 INFO @ Wed, 22 Apr 2020 10:13:28: 15000000 INFO @ Wed, 22 Apr 2020 10:13:31: 2000000 INFO @ Wed, 22 Apr 2020 10:13:31: 9000000 INFO @ Wed, 22 Apr 2020 10:13:32: 16000000 INFO @ Wed, 22 Apr 2020 10:13:35: 3000000 INFO @ Wed, 22 Apr 2020 10:13:36: 10000000 INFO @ Wed, 22 Apr 2020 10:13:37: 17000000 INFO @ Wed, 22 Apr 2020 10:13:40: 4000000 INFO @ Wed, 22 Apr 2020 10:13:40: 11000000 INFO @ Wed, 22 Apr 2020 10:13:41: 18000000 INFO @ Wed, 22 Apr 2020 10:13:44: 5000000 INFO @ Wed, 22 Apr 2020 10:13:44: 12000000 INFO @ Wed, 22 Apr 2020 10:13:45: 19000000 INFO @ Wed, 22 Apr 2020 10:13:49: 6000000 INFO @ Wed, 22 Apr 2020 10:13:49: 13000000 INFO @ Wed, 22 Apr 2020 10:13:50: 20000000 INFO @ Wed, 22 Apr 2020 10:13:53: 14000000 INFO @ Wed, 22 Apr 2020 10:13:53: 7000000 INFO @ Wed, 22 Apr 2020 10:13:54: 21000000 INFO @ Wed, 22 Apr 2020 10:13:58: 15000000 INFO @ Wed, 22 Apr 2020 10:13:58: 8000000 INFO @ Wed, 22 Apr 2020 10:13:59: 22000000 INFO @ Wed, 22 Apr 2020 10:14:02: 16000000 INFO @ Wed, 22 Apr 2020 10:14:02: 9000000 INFO @ Wed, 22 Apr 2020 10:14:03: 23000000 INFO @ Wed, 22 Apr 2020 10:14:06: 17000000 INFO @ Wed, 22 Apr 2020 10:14:07: 10000000 INFO @ Wed, 22 Apr 2020 10:14:07: 24000000 INFO @ Wed, 22 Apr 2020 10:14:11: 18000000 INFO @ Wed, 22 Apr 2020 10:14:11: 11000000 INFO @ Wed, 22 Apr 2020 10:14:12: 25000000 INFO @ Wed, 22 Apr 2020 10:14:15: 19000000 INFO @ Wed, 22 Apr 2020 10:14:16: 12000000 INFO @ Wed, 22 Apr 2020 10:14:16: 26000000 INFO @ Wed, 22 Apr 2020 10:14:19: 20000000 INFO @ Wed, 22 Apr 2020 10:14:20: 13000000 INFO @ Wed, 22 Apr 2020 10:14:21: 27000000 INFO @ Wed, 22 Apr 2020 10:14:24: 21000000 INFO @ Wed, 22 Apr 2020 10:14:24: 14000000 INFO @ Wed, 22 Apr 2020 10:14:25: 28000000 INFO @ Wed, 22 Apr 2020 10:14:28: 22000000 INFO @ Wed, 22 Apr 2020 10:14:29: 15000000 INFO @ Wed, 22 Apr 2020 10:14:29: 29000000 INFO @ Wed, 22 Apr 2020 10:14:32: 23000000 INFO @ Wed, 22 Apr 2020 10:14:33: 16000000 INFO @ Wed, 22 Apr 2020 10:14:34: 30000000 INFO @ Wed, 22 Apr 2020 10:14:37: 24000000 INFO @ Wed, 22 Apr 2020 10:14:38: 17000000 INFO @ Wed, 22 Apr 2020 10:14:38: 31000000 INFO @ Wed, 22 Apr 2020 10:14:41: 25000000 INFO @ Wed, 22 Apr 2020 10:14:42: 18000000 INFO @ Wed, 22 Apr 2020 10:14:42: 32000000 INFO @ Wed, 22 Apr 2020 10:14:45: 26000000 INFO @ Wed, 22 Apr 2020 10:14:46: 19000000 INFO @ Wed, 22 Apr 2020 10:14:47: 33000000 INFO @ Wed, 22 Apr 2020 10:14:50: 27000000 INFO @ Wed, 22 Apr 2020 10:14:51: 20000000 INFO @ Wed, 22 Apr 2020 10:14:51: 34000000 INFO @ Wed, 22 Apr 2020 10:14:54: 28000000 INFO @ Wed, 22 Apr 2020 10:14:55: 21000000 INFO @ Wed, 22 Apr 2020 10:14:55: 35000000 INFO @ Wed, 22 Apr 2020 10:14:58: 29000000 INFO @ Wed, 22 Apr 2020 10:14:59: 22000000 INFO @ Wed, 22 Apr 2020 10:15:00: 36000000 INFO @ Wed, 22 Apr 2020 10:15:03: 30000000 INFO @ Wed, 22 Apr 2020 10:15:04: 23000000 INFO @ Wed, 22 Apr 2020 10:15:04: 37000000 INFO @ Wed, 22 Apr 2020 10:15:07: 31000000 INFO @ Wed, 22 Apr 2020 10:15:08: 24000000 INFO @ Wed, 22 Apr 2020 10:15:08: 38000000 INFO @ Wed, 22 Apr 2020 10:15:12: 32000000 INFO @ Wed, 22 Apr 2020 10:15:12: 25000000 INFO @ Wed, 22 Apr 2020 10:15:13: 39000000 INFO @ Wed, 22 Apr 2020 10:15:16: 33000000 INFO @ Wed, 22 Apr 2020 10:15:17: 26000000 INFO @ Wed, 22 Apr 2020 10:15:17: 40000000 INFO @ Wed, 22 Apr 2020 10:15:20: 34000000 INFO @ Wed, 22 Apr 2020 10:15:21: 27000000 INFO @ Wed, 22 Apr 2020 10:15:21: 41000000 INFO @ Wed, 22 Apr 2020 10:15:25: 35000000 INFO @ Wed, 22 Apr 2020 10:15:25: 28000000 INFO @ Wed, 22 Apr 2020 10:15:26: 42000000 INFO @ Wed, 22 Apr 2020 10:15:29: 36000000 INFO @ Wed, 22 Apr 2020 10:15:30: 29000000 INFO @ Wed, 22 Apr 2020 10:15:30: 43000000 INFO @ Wed, 22 Apr 2020 10:15:33: 37000000 INFO @ Wed, 22 Apr 2020 10:15:34: 30000000 INFO @ Wed, 22 Apr 2020 10:15:34: 44000000 INFO @ Wed, 22 Apr 2020 10:15:38: 38000000 INFO @ Wed, 22 Apr 2020 10:15:39: 31000000 INFO @ Wed, 22 Apr 2020 10:15:39: 45000000 INFO @ Wed, 22 Apr 2020 10:15:42: 39000000 INFO @ Wed, 22 Apr 2020 10:15:43: 32000000 INFO @ Wed, 22 Apr 2020 10:15:43: 46000000 INFO @ Wed, 22 Apr 2020 10:15:46: 40000000 INFO @ Wed, 22 Apr 2020 10:15:47: 33000000 INFO @ Wed, 22 Apr 2020 10:15:47: 47000000 INFO @ Wed, 22 Apr 2020 10:15:51: 41000000 INFO @ Wed, 22 Apr 2020 10:15:51: 34000000 INFO @ Wed, 22 Apr 2020 10:15:52: 48000000 INFO @ Wed, 22 Apr 2020 10:15:55: 42000000 INFO @ Wed, 22 Apr 2020 10:15:56: 35000000 INFO @ Wed, 22 Apr 2020 10:15:56: 49000000 INFO @ Wed, 22 Apr 2020 10:15:59: 43000000 INFO @ Wed, 22 Apr 2020 10:16:00: 36000000 INFO @ Wed, 22 Apr 2020 10:16:00: 50000000 INFO @ Wed, 22 Apr 2020 10:16:04: 44000000 INFO @ Wed, 22 Apr 2020 10:16:05: 37000000 INFO @ Wed, 22 Apr 2020 10:16:05: 51000000 INFO @ Wed, 22 Apr 2020 10:16:08: 45000000 INFO @ Wed, 22 Apr 2020 10:16:09: 52000000 INFO @ Wed, 22 Apr 2020 10:16:09: 38000000 INFO @ Wed, 22 Apr 2020 10:16:12: 46000000 INFO @ Wed, 22 Apr 2020 10:16:13: 39000000 INFO @ Wed, 22 Apr 2020 10:16:13: 53000000 INFO @ Wed, 22 Apr 2020 10:16:16: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:16:16: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:16:16: #1 total tags in treatment: 26567947 INFO @ Wed, 22 Apr 2020 10:16:16: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:16:16: #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 10:16:16: 47000000 INFO @ Wed, 22 Apr 2020 10:16:16: #1 tags after filtering in treatment: 14431014 INFO @ Wed, 22 Apr 2020 10:16:16: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Apr 2020 10:16:16: #1 finished! INFO @ Wed, 22 Apr 2020 10:16:16: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:16:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:16:17: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:16:17: 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 10:16:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.05_peaks.narrowPeak: No such file or directory INFO @ Wed, 22 Apr 2020 10:16:18: 40000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:16:21: 48000000 INFO @ Wed, 22 Apr 2020 10:16:22: 41000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:16:25: 49000000 INFO @ Wed, 22 Apr 2020 10:16:26: 42000000 INFO @ Wed, 22 Apr 2020 10:16:29: 50000000 INFO @ Wed, 22 Apr 2020 10:16:31: 43000000 INFO @ Wed, 22 Apr 2020 10:16:34: 51000000 INFO @ Wed, 22 Apr 2020 10:16:35: 44000000 INFO @ Wed, 22 Apr 2020 10:16:38: 52000000 INFO @ Wed, 22 Apr 2020 10:16:39: 45000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:16:43: 53000000 INFO @ Wed, 22 Apr 2020 10:16:44: 46000000 INFO @ Wed, 22 Apr 2020 10:16:45: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:16:45: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:16:45: #1 total tags in treatment: 26567947 INFO @ Wed, 22 Apr 2020 10:16:45: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:16:45: #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 10:16:46: #1 tags after filtering in treatment: 14431014 INFO @ Wed, 22 Apr 2020 10:16:46: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Apr 2020 10:16:46: #1 finished! INFO @ Wed, 22 Apr 2020 10:16:46: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:16:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:16:47: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:16:47: 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 10:16:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.10_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/SRX7409554/SRX7409554.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:16:48: 47000000 INFO @ Wed, 22 Apr 2020 10:16:52: 48000000 INFO @ Wed, 22 Apr 2020 10:16:57: 49000000 INFO @ Wed, 22 Apr 2020 10:17:01: 50000000 INFO @ Wed, 22 Apr 2020 10:17:05: 51000000 INFO @ Wed, 22 Apr 2020 10:17:10: 52000000 INFO @ Wed, 22 Apr 2020 10:17:14: 53000000 INFO @ Wed, 22 Apr 2020 10:17:17: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:17:17: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:17:17: #1 total tags in treatment: 26567947 INFO @ Wed, 22 Apr 2020 10:17:17: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:17:17: #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 10:17:17: #1 tags after filtering in treatment: 14431014 INFO @ Wed, 22 Apr 2020 10:17:17: #1 Redundant rate of treatment: 0.46 INFO @ Wed, 22 Apr 2020 10:17:17: #1 finished! INFO @ Wed, 22 Apr 2020 10:17:17: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:17:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:17:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:17:18: 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 10:17:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.20_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/SRX7409554/SRX7409554.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409554/SRX7409554.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling