Job ID = 5791663 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 34,289,443 reads read : 68,578,886 reads written : 68,578,886 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: 00:23:11 34289443 reads; of these: 34289443 (100.00%) were paired; of these: 6149971 (17.94%) aligned concordantly 0 times 23444929 (68.37%) aligned concordantly exactly 1 time 4694543 (13.69%) aligned concordantly >1 times ---- 6149971 pairs aligned concordantly 0 times; of these: 14060 (0.23%) aligned discordantly 1 time ---- 6135911 pairs aligned 0 times concordantly or discordantly; of these: 12271822 mates make up the pairs; of these: 11727112 (95.56%) aligned 0 times 412163 (3.36%) aligned exactly 1 time 132547 (1.08%) aligned >1 times 82.90% overall alignment rate Time searching: 00:23:11 Overall time: 00:23:11 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 24 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] 12399411 / 28143731 = 0.4406 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 11:08:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.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 11:08:39: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:08:39: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:08:44: 1000000 INFO @ Wed, 22 Apr 2020 11:08:48: 2000000 INFO @ Wed, 22 Apr 2020 11:08:52: 3000000 INFO @ Wed, 22 Apr 2020 11:08:56: 4000000 INFO @ Wed, 22 Apr 2020 11:09:00: 5000000 INFO @ Wed, 22 Apr 2020 11:09:05: 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 11:09:09: 7000000 INFO @ Wed, 22 Apr 2020 11:09:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.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 11:09:09: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:09:09: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:09:13: 8000000 INFO @ Wed, 22 Apr 2020 11:09:14: 1000000 INFO @ Wed, 22 Apr 2020 11:09:17: 9000000 INFO @ Wed, 22 Apr 2020 11:09:19: 2000000 INFO @ Wed, 22 Apr 2020 11:09:22: 10000000 INFO @ Wed, 22 Apr 2020 11:09:24: 3000000 INFO @ Wed, 22 Apr 2020 11:09:26: 11000000 INFO @ Wed, 22 Apr 2020 11:09:29: 4000000 INFO @ Wed, 22 Apr 2020 11:09:30: 12000000 INFO @ Wed, 22 Apr 2020 11:09:34: 5000000 INFO @ Wed, 22 Apr 2020 11:09:34: 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 11:09:39: 14000000 INFO @ Wed, 22 Apr 2020 11:09:39: 6000000 INFO @ Wed, 22 Apr 2020 11:09:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.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 11:09:39: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:09:39: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:09:43: 15000000 INFO @ Wed, 22 Apr 2020 11:09:44: 1000000 INFO @ Wed, 22 Apr 2020 11:09:44: 7000000 INFO @ Wed, 22 Apr 2020 11:09:48: 16000000 INFO @ Wed, 22 Apr 2020 11:09:48: 2000000 INFO @ Wed, 22 Apr 2020 11:09:49: 8000000 INFO @ Wed, 22 Apr 2020 11:09:52: 17000000 INFO @ Wed, 22 Apr 2020 11:09:53: 3000000 INFO @ Wed, 22 Apr 2020 11:09:54: 9000000 INFO @ Wed, 22 Apr 2020 11:09:56: 18000000 INFO @ Wed, 22 Apr 2020 11:09:57: 4000000 INFO @ Wed, 22 Apr 2020 11:09:59: 10000000 INFO @ Wed, 22 Apr 2020 11:10:01: 19000000 INFO @ Wed, 22 Apr 2020 11:10:02: 5000000 INFO @ Wed, 22 Apr 2020 11:10:04: 11000000 INFO @ Wed, 22 Apr 2020 11:10:05: 20000000 INFO @ Wed, 22 Apr 2020 11:10:06: 6000000 INFO @ Wed, 22 Apr 2020 11:10:09: 12000000 INFO @ Wed, 22 Apr 2020 11:10:09: 21000000 INFO @ Wed, 22 Apr 2020 11:10:10: 7000000 INFO @ Wed, 22 Apr 2020 11:10:14: 22000000 INFO @ Wed, 22 Apr 2020 11:10:14: 13000000 INFO @ Wed, 22 Apr 2020 11:10:15: 8000000 INFO @ Wed, 22 Apr 2020 11:10:18: 23000000 INFO @ Wed, 22 Apr 2020 11:10:19: 14000000 INFO @ Wed, 22 Apr 2020 11:10:19: 9000000 INFO @ Wed, 22 Apr 2020 11:10:22: 24000000 INFO @ Wed, 22 Apr 2020 11:10:23: 10000000 INFO @ Wed, 22 Apr 2020 11:10:24: 15000000 INFO @ Wed, 22 Apr 2020 11:10:26: 25000000 INFO @ Wed, 22 Apr 2020 11:10:28: 11000000 INFO @ Wed, 22 Apr 2020 11:10:28: 16000000 INFO @ Wed, 22 Apr 2020 11:10:31: 26000000 INFO @ Wed, 22 Apr 2020 11:10:33: 12000000 INFO @ Wed, 22 Apr 2020 11:10:33: 17000000 INFO @ Wed, 22 Apr 2020 11:10:35: 27000000 INFO @ Wed, 22 Apr 2020 11:10:37: 13000000 INFO @ Wed, 22 Apr 2020 11:10:38: 18000000 INFO @ Wed, 22 Apr 2020 11:10:40: 28000000 INFO @ Wed, 22 Apr 2020 11:10:42: 14000000 INFO @ Wed, 22 Apr 2020 11:10:43: 19000000 INFO @ Wed, 22 Apr 2020 11:10:44: 29000000 INFO @ Wed, 22 Apr 2020 11:10:47: 15000000 INFO @ Wed, 22 Apr 2020 11:10:47: 20000000 INFO @ Wed, 22 Apr 2020 11:10:49: 30000000 INFO @ Wed, 22 Apr 2020 11:10:51: 16000000 INFO @ Wed, 22 Apr 2020 11:10:52: 21000000 INFO @ Wed, 22 Apr 2020 11:10:53: 31000000 INFO @ Wed, 22 Apr 2020 11:10:55: 17000000 INFO @ Wed, 22 Apr 2020 11:10:57: 22000000 INFO @ Wed, 22 Apr 2020 11:10:58: 32000000 INFO @ Wed, 22 Apr 2020 11:10:58: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:10:58: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:10:58: #1 total tags in treatment: 15742439 INFO @ Wed, 22 Apr 2020 11:10:58: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:10:58: #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 11:10:58: #1 tags after filtering in treatment: 8280524 INFO @ Wed, 22 Apr 2020 11:10:58: #1 Redundant rate of treatment: 0.47 INFO @ Wed, 22 Apr 2020 11:10:58: #1 finished! INFO @ Wed, 22 Apr 2020 11:10:58: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:10:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:10:59: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:10:59: 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 11:10:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:10:59: 18000000 INFO @ Wed, 22 Apr 2020 11:11:02: 23000000 INFO @ Wed, 22 Apr 2020 11:11:04: 19000000 INFO @ Wed, 22 Apr 2020 11:11:06: 24000000 INFO @ Wed, 22 Apr 2020 11:11:08: 20000000 INFO @ Wed, 22 Apr 2020 11:11:11: 25000000 INFO @ Wed, 22 Apr 2020 11:11:12: 21000000 INFO @ Wed, 22 Apr 2020 11:11:16: 26000000 INFO @ Wed, 22 Apr 2020 11:11:16: 22000000 INFO @ Wed, 22 Apr 2020 11:11:21: 27000000 INFO @ Wed, 22 Apr 2020 11:11:21: 23000000 INFO @ Wed, 22 Apr 2020 11:11:25: 24000000 INFO @ Wed, 22 Apr 2020 11:11:25: 28000000 INFO @ Wed, 22 Apr 2020 11:11:29: 25000000 INFO @ Wed, 22 Apr 2020 11:11:30: 29000000 INFO @ Wed, 22 Apr 2020 11:11:34: 26000000 INFO @ Wed, 22 Apr 2020 11:11:35: 30000000 INFO @ Wed, 22 Apr 2020 11:11:38: 27000000 INFO @ Wed, 22 Apr 2020 11:11:40: 31000000 INFO @ Wed, 22 Apr 2020 11:11:42: 28000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 11:11:44: 32000000 INFO @ Wed, 22 Apr 2020 11:11:45: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:11:45: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:11:45: #1 total tags in treatment: 15742439 INFO @ Wed, 22 Apr 2020 11:11:45: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:11:45: #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 11:11:45: #1 tags after filtering in treatment: 8280524 INFO @ Wed, 22 Apr 2020 11:11:45: #1 Redundant rate of treatment: 0.47 INFO @ Wed, 22 Apr 2020 11:11:45: #1 finished! INFO @ Wed, 22 Apr 2020 11:11:45: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:11:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:11:45: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:11:45: 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 11:11:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.10_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/SRX7409626/SRX7409626.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:11:46: 29000000 INFO @ Wed, 22 Apr 2020 11:11:50: 30000000 INFO @ Wed, 22 Apr 2020 11:11:54: 31000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 11:11:59: 32000000 INFO @ Wed, 22 Apr 2020 11:11:59: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:11:59: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:11:59: #1 total tags in treatment: 15742439 INFO @ Wed, 22 Apr 2020 11:11:59: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:11:59: #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 11:11:59: #1 tags after filtering in treatment: 8280524 INFO @ Wed, 22 Apr 2020 11:11:59: #1 Redundant rate of treatment: 0.47 INFO @ Wed, 22 Apr 2020 11:11:59: #1 finished! INFO @ Wed, 22 Apr 2020 11:11:59: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:11:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:12:00: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:12:00: 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 11:12:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.20_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/SRX7409626/SRX7409626.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409626/SRX7409626.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling