Job ID = 5791306 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 28,176,649 reads read : 56,353,298 reads written : 56,353,298 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: 00:14:16 28176649 reads; of these: 28176649 (100.00%) were paired; of these: 474969 (1.69%) aligned concordantly 0 times 24372165 (86.50%) aligned concordantly exactly 1 time 3329515 (11.82%) aligned concordantly >1 times ---- 474969 pairs aligned concordantly 0 times; of these: 40894 (8.61%) aligned discordantly 1 time ---- 434075 pairs aligned 0 times concordantly or discordantly; of these: 868150 mates make up the pairs; of these: 680433 (78.38%) aligned 0 times 143758 (16.56%) aligned exactly 1 time 43959 (5.06%) aligned >1 times 98.79% overall alignment rate Time searching: 00:14:16 Overall time: 00:14:16 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] 5796059 / 27710881 = 0.2092 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 10:03:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.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 10:03:54: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:03:54: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:04:00: 1000000 INFO @ Wed, 22 Apr 2020 10:04:05: 2000000 INFO @ Wed, 22 Apr 2020 10:04:10: 3000000 INFO @ Wed, 22 Apr 2020 10:04:15: 4000000 INFO @ Wed, 22 Apr 2020 10:04:19: 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 Apr 2020 10:04:24: 6000000 INFO @ Wed, 22 Apr 2020 10:04:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.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 10:04:24: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:04:24: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:04:29: 7000000 INFO @ Wed, 22 Apr 2020 10:04:29: 1000000 INFO @ Wed, 22 Apr 2020 10:04:35: 2000000 INFO @ Wed, 22 Apr 2020 10:04:35: 8000000 INFO @ Wed, 22 Apr 2020 10:04:40: 3000000 INFO @ Wed, 22 Apr 2020 10:04:41: 9000000 INFO @ Wed, 22 Apr 2020 10:04:45: 4000000 INFO @ Wed, 22 Apr 2020 10:04:46: 10000000 INFO @ Wed, 22 Apr 2020 10:04:50: 5000000 INFO @ Wed, 22 Apr 2020 10:04:51: 11000000 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 10:04:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.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 10:04:54: #1 read tag files... INFO @ Wed, 22 Apr 2020 10:04:54: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 10:04:55: 6000000 INFO @ Wed, 22 Apr 2020 10:04:56: 12000000 INFO @ Wed, 22 Apr 2020 10:05:01: 7000000 INFO @ Wed, 22 Apr 2020 10:05:02: 13000000 INFO @ Wed, 22 Apr 2020 10:05:07: 8000000 INFO @ Wed, 22 Apr 2020 10:05:07: 14000000 INFO @ Wed, 22 Apr 2020 10:05:10: 1000000 INFO @ Wed, 22 Apr 2020 10:05:12: 9000000 INFO @ Wed, 22 Apr 2020 10:05:13: 15000000 INFO @ Wed, 22 Apr 2020 10:05:18: 10000000 INFO @ Wed, 22 Apr 2020 10:05:18: 16000000 INFO @ Wed, 22 Apr 2020 10:05:23: 11000000 INFO @ Wed, 22 Apr 2020 10:05:24: 17000000 INFO @ Wed, 22 Apr 2020 10:05:24: 2000000 INFO @ Wed, 22 Apr 2020 10:05:29: 12000000 INFO @ Wed, 22 Apr 2020 10:05:30: 18000000 INFO @ Wed, 22 Apr 2020 10:05:32: 3000000 INFO @ Wed, 22 Apr 2020 10:05:34: 13000000 INFO @ Wed, 22 Apr 2020 10:05:35: 19000000 INFO @ Wed, 22 Apr 2020 10:05:39: 4000000 INFO @ Wed, 22 Apr 2020 10:05:40: 14000000 INFO @ Wed, 22 Apr 2020 10:05:41: 20000000 INFO @ Wed, 22 Apr 2020 10:05:45: 15000000 INFO @ Wed, 22 Apr 2020 10:05:47: 21000000 INFO @ Wed, 22 Apr 2020 10:05:49: 5000000 INFO @ Wed, 22 Apr 2020 10:05:51: 16000000 INFO @ Wed, 22 Apr 2020 10:05:52: 22000000 INFO @ Wed, 22 Apr 2020 10:05:57: 17000000 INFO @ Wed, 22 Apr 2020 10:05:58: 23000000 INFO @ Wed, 22 Apr 2020 10:05:58: 6000000 INFO @ Wed, 22 Apr 2020 10:06:02: 18000000 INFO @ Wed, 22 Apr 2020 10:06:03: 24000000 INFO @ Wed, 22 Apr 2020 10:06:06: 7000000 INFO @ Wed, 22 Apr 2020 10:06:08: 19000000 INFO @ Wed, 22 Apr 2020 10:06:09: 25000000 INFO @ Wed, 22 Apr 2020 10:06:13: 8000000 INFO @ Wed, 22 Apr 2020 10:06:13: 20000000 INFO @ Wed, 22 Apr 2020 10:06:14: 26000000 INFO @ Wed, 22 Apr 2020 10:06:19: 21000000 INFO @ Wed, 22 Apr 2020 10:06:20: 27000000 INFO @ Wed, 22 Apr 2020 10:06:21: 9000000 INFO @ Wed, 22 Apr 2020 10:06:24: 22000000 INFO @ Wed, 22 Apr 2020 10:06:26: 28000000 INFO @ Wed, 22 Apr 2020 10:06:28: 10000000 INFO @ Wed, 22 Apr 2020 10:06:30: 23000000 INFO @ Wed, 22 Apr 2020 10:06:31: 29000000 INFO @ Wed, 22 Apr 2020 10:06:35: 24000000 INFO @ Wed, 22 Apr 2020 10:06:37: 30000000 INFO @ Wed, 22 Apr 2020 10:06:37: 11000000 INFO @ Wed, 22 Apr 2020 10:06:41: 25000000 INFO @ Wed, 22 Apr 2020 10:06:42: 31000000 INFO @ Wed, 22 Apr 2020 10:06:46: 26000000 INFO @ Wed, 22 Apr 2020 10:06:48: 32000000 INFO @ Wed, 22 Apr 2020 10:06:52: 12000000 INFO @ Wed, 22 Apr 2020 10:06:52: 27000000 INFO @ Wed, 22 Apr 2020 10:06:54: 33000000 INFO @ Wed, 22 Apr 2020 10:06:57: 28000000 INFO @ Wed, 22 Apr 2020 10:06:59: 34000000 INFO @ Wed, 22 Apr 2020 10:07:03: 29000000 INFO @ Wed, 22 Apr 2020 10:07:05: 35000000 INFO @ Wed, 22 Apr 2020 10:07:08: 30000000 INFO @ Wed, 22 Apr 2020 10:07:10: 36000000 INFO @ Wed, 22 Apr 2020 10:07:14: 31000000 INFO @ Wed, 22 Apr 2020 10:07:16: 37000000 INFO @ Wed, 22 Apr 2020 10:07:18: 13000000 INFO @ Wed, 22 Apr 2020 10:07:20: 32000000 INFO @ Wed, 22 Apr 2020 10:07:22: 38000000 INFO @ Wed, 22 Apr 2020 10:07:25: 33000000 INFO @ Wed, 22 Apr 2020 10:07:27: 39000000 INFO @ Wed, 22 Apr 2020 10:07:31: 34000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Apr 2020 10:07:33: 40000000 INFO @ Wed, 22 Apr 2020 10:07:36: 35000000 INFO @ Wed, 22 Apr 2020 10:07:38: 41000000 INFO @ Wed, 22 Apr 2020 10:07:42: 36000000 INFO @ Wed, 22 Apr 2020 10:07:44: 14000000 INFO @ Wed, 22 Apr 2020 10:07:44: 42000000 INFO @ Wed, 22 Apr 2020 10:07:47: 37000000 BigWig に変換しました。 INFO @ Wed, 22 Apr 2020 10:07:50: 43000000 INFO @ Wed, 22 Apr 2020 10:07:53: 38000000 INFO @ Wed, 22 Apr 2020 10:07:55: 44000000 INFO @ Wed, 22 Apr 2020 10:07:56: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:07:56: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:07:56: #1 total tags in treatment: 21906903 INFO @ Wed, 22 Apr 2020 10:07:56: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:07:56: #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 10:07:56: #1 tags after filtering in treatment: 13244334 INFO @ Wed, 22 Apr 2020 10:07:56: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Apr 2020 10:07:56: #1 finished! INFO @ Wed, 22 Apr 2020 10:07:56: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:07:56: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:07:57: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:07:57: 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 10:07:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.05_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/SRX7409562/SRX7409562.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:07:58: 39000000 INFO @ Wed, 22 Apr 2020 10:08:03: 40000000 INFO @ Wed, 22 Apr 2020 10:08:08: 15000000 INFO @ Wed, 22 Apr 2020 10:08:09: 41000000 INFO @ Wed, 22 Apr 2020 10:08:14: 42000000 INFO @ Wed, 22 Apr 2020 10:08:19: 43000000 INFO @ Wed, 22 Apr 2020 10:08:25: 44000000 INFO @ Wed, 22 Apr 2020 10:08:25: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:08:25: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:08:25: #1 total tags in treatment: 21906903 INFO @ Wed, 22 Apr 2020 10:08:25: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:08:25: #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 10:08:26: #1 tags after filtering in treatment: 13244334 INFO @ Wed, 22 Apr 2020 10:08:26: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Apr 2020 10:08:26: #1 finished! INFO @ Wed, 22 Apr 2020 10:08:26: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:08:26: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:08:27: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:08:27: 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 10:08:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.10_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/SRX7409562/SRX7409562.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 10:08:34: 16000000 INFO @ Wed, 22 Apr 2020 10:08:40: 17000000 INFO @ Wed, 22 Apr 2020 10:08:46: 18000000 INFO @ Wed, 22 Apr 2020 10:08:51: 19000000 INFO @ Wed, 22 Apr 2020 10:08:57: 20000000 INFO @ Wed, 22 Apr 2020 10:09:03: 21000000 INFO @ Wed, 22 Apr 2020 10:09:09: 22000000 INFO @ Wed, 22 Apr 2020 10:09:15: 23000000 INFO @ Wed, 22 Apr 2020 10:09:22: 24000000 INFO @ Wed, 22 Apr 2020 10:09:30: 25000000 INFO @ Wed, 22 Apr 2020 10:09:38: 26000000 INFO @ Wed, 22 Apr 2020 10:09:43: 27000000 INFO @ Wed, 22 Apr 2020 10:09:50: 28000000 INFO @ Wed, 22 Apr 2020 10:09:56: 29000000 INFO @ Wed, 22 Apr 2020 10:10:02: 30000000 INFO @ Wed, 22 Apr 2020 10:10:08: 31000000 INFO @ Wed, 22 Apr 2020 10:10:14: 32000000 INFO @ Wed, 22 Apr 2020 10:10:19: 33000000 INFO @ Wed, 22 Apr 2020 10:10:25: 34000000 INFO @ Wed, 22 Apr 2020 10:10:31: 35000000 INFO @ Wed, 22 Apr 2020 10:10:37: 36000000 INFO @ Wed, 22 Apr 2020 10:10:44: 37000000 INFO @ Wed, 22 Apr 2020 10:10:50: 38000000 INFO @ Wed, 22 Apr 2020 10:10:56: 39000000 INFO @ Wed, 22 Apr 2020 10:11:02: 40000000 INFO @ Wed, 22 Apr 2020 10:11:09: 41000000 INFO @ Wed, 22 Apr 2020 10:11:15: 42000000 INFO @ Wed, 22 Apr 2020 10:11:21: 43000000 INFO @ Wed, 22 Apr 2020 10:11:27: 44000000 INFO @ Wed, 22 Apr 2020 10:11:27: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 10:11:27: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 10:11:27: #1 total tags in treatment: 21906903 INFO @ Wed, 22 Apr 2020 10:11:27: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 10:11:27: #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 10:11:28: #1 tags after filtering in treatment: 13244334 INFO @ Wed, 22 Apr 2020 10:11:28: #1 Redundant rate of treatment: 0.40 INFO @ Wed, 22 Apr 2020 10:11:28: #1 finished! INFO @ Wed, 22 Apr 2020 10:11:28: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 10:11:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 10:11:28: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 10:11:28: 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 10:11:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.20_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/SRX7409562/SRX7409562.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7409562/SRX7409562.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling