Job ID = 10223912 SRX = SRX4623302 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 21929877 spots for SRR7767707/SRR7767707.sra Written 21929877 spots for SRR7767707/SRR7767707.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: 00:07:53 21929877 reads; of these: 21929877 (100.00%) were paired; of these: 1412821 (6.44%) aligned concordantly 0 times 17795840 (81.15%) aligned concordantly exactly 1 time 2721216 (12.41%) aligned concordantly >1 times ---- 1412821 pairs aligned concordantly 0 times; of these: 546767 (38.70%) aligned discordantly 1 time ---- 866054 pairs aligned 0 times concordantly or discordantly; of these: 1732108 mates make up the pairs; of these: 1239671 (71.57%) aligned 0 times 259491 (14.98%) aligned exactly 1 time 232946 (13.45%) aligned >1 times 97.17% overall alignment rate Time searching: 00:07:53 Overall time: 00:07:53 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 12 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] 463081 / 20920481 = 0.0221 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 @ Fri, 16 Oct 2020 09:00:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.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 @ Fri, 16 Oct 2020 09:00:18: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:00:18: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:00:23: 1000000 INFO @ Fri, 16 Oct 2020 09:00:28: 2000000 INFO @ Fri, 16 Oct 2020 09:00:32: 3000000 INFO @ Fri, 16 Oct 2020 09:00:37: 4000000 INFO @ Fri, 16 Oct 2020 09:00:42: 5000000 INFO @ Fri, 16 Oct 2020 09:00:46: 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 @ Fri, 16 Oct 2020 09:00:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.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 @ Fri, 16 Oct 2020 09:00:48: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:00:48: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:00:51: 7000000 INFO @ Fri, 16 Oct 2020 09:00:53: 1000000 INFO @ Fri, 16 Oct 2020 09:00:56: 8000000 INFO @ Fri, 16 Oct 2020 09:00:58: 2000000 INFO @ Fri, 16 Oct 2020 09:01:01: 9000000 INFO @ Fri, 16 Oct 2020 09:01:03: 3000000 INFO @ Fri, 16 Oct 2020 09:01:06: 10000000 INFO @ Fri, 16 Oct 2020 09:01:08: 4000000 INFO @ Fri, 16 Oct 2020 09:01:11: 11000000 INFO @ Fri, 16 Oct 2020 09:01:13: 5000000 INFO @ Fri, 16 Oct 2020 09:01:16: 12000000 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 @ Fri, 16 Oct 2020 09:01:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.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 @ Fri, 16 Oct 2020 09:01:18: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:01:18: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:01:18: 6000000 INFO @ Fri, 16 Oct 2020 09:01:21: 13000000 INFO @ Fri, 16 Oct 2020 09:01:23: 1000000 INFO @ Fri, 16 Oct 2020 09:01:23: 7000000 INFO @ Fri, 16 Oct 2020 09:01:26: 14000000 INFO @ Fri, 16 Oct 2020 09:01:28: 2000000 INFO @ Fri, 16 Oct 2020 09:01:28: 8000000 INFO @ Fri, 16 Oct 2020 09:01:31: 15000000 INFO @ Fri, 16 Oct 2020 09:01:33: 3000000 INFO @ Fri, 16 Oct 2020 09:01:33: 9000000 INFO @ Fri, 16 Oct 2020 09:01:36: 16000000 INFO @ Fri, 16 Oct 2020 09:01:38: 4000000 INFO @ Fri, 16 Oct 2020 09:01:38: 10000000 INFO @ Fri, 16 Oct 2020 09:01:41: 17000000 INFO @ Fri, 16 Oct 2020 09:01:43: 5000000 INFO @ Fri, 16 Oct 2020 09:01:44: 11000000 INFO @ Fri, 16 Oct 2020 09:01:46: 18000000 INFO @ Fri, 16 Oct 2020 09:01:48: 6000000 INFO @ Fri, 16 Oct 2020 09:01:48: 12000000 INFO @ Fri, 16 Oct 2020 09:01:51: 19000000 INFO @ Fri, 16 Oct 2020 09:01:53: 7000000 INFO @ Fri, 16 Oct 2020 09:01:53: 13000000 INFO @ Fri, 16 Oct 2020 09:01:56: 20000000 INFO @ Fri, 16 Oct 2020 09:01:58: 8000000 INFO @ Fri, 16 Oct 2020 09:01:58: 14000000 INFO @ Fri, 16 Oct 2020 09:02:02: 21000000 INFO @ Fri, 16 Oct 2020 09:02:03: 9000000 INFO @ Fri, 16 Oct 2020 09:02:03: 15000000 INFO @ Fri, 16 Oct 2020 09:02:07: 22000000 INFO @ Fri, 16 Oct 2020 09:02:08: 10000000 INFO @ Fri, 16 Oct 2020 09:02:08: 16000000 INFO @ Fri, 16 Oct 2020 09:02:12: 23000000 INFO @ Fri, 16 Oct 2020 09:02:13: 11000000 INFO @ Fri, 16 Oct 2020 09:02:14: 17000000 INFO @ Fri, 16 Oct 2020 09:02:16: 24000000 INFO @ Fri, 16 Oct 2020 09:02:18: 12000000 INFO @ Fri, 16 Oct 2020 09:02:19: 18000000 INFO @ Fri, 16 Oct 2020 09:02:21: 25000000 INFO @ Fri, 16 Oct 2020 09:02:23: 13000000 INFO @ Fri, 16 Oct 2020 09:02:24: 19000000 INFO @ Fri, 16 Oct 2020 09:02:26: 26000000 INFO @ Fri, 16 Oct 2020 09:02:28: 14000000 INFO @ Fri, 16 Oct 2020 09:02:29: 20000000 INFO @ Fri, 16 Oct 2020 09:02:31: 27000000 INFO @ Fri, 16 Oct 2020 09:02:33: 15000000 INFO @ Fri, 16 Oct 2020 09:02:34: 21000000 INFO @ Fri, 16 Oct 2020 09:02:36: 28000000 INFO @ Fri, 16 Oct 2020 09:02:38: 16000000 INFO @ Fri, 16 Oct 2020 09:02:39: 22000000 INFO @ Fri, 16 Oct 2020 09:02:41: 29000000 INFO @ Fri, 16 Oct 2020 09:02:43: 17000000 INFO @ Fri, 16 Oct 2020 09:02:44: 23000000 INFO @ Fri, 16 Oct 2020 09:02:46: 30000000 INFO @ Fri, 16 Oct 2020 09:02:48: 18000000 INFO @ Fri, 16 Oct 2020 09:02:49: 24000000 INFO @ Fri, 16 Oct 2020 09:02:51: 31000000 INFO @ Fri, 16 Oct 2020 09:02:53: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:02:54: 25000000 INFO @ Fri, 16 Oct 2020 09:02:56: 32000000 INFO @ Fri, 16 Oct 2020 09:02:58: 20000000 INFO @ Fri, 16 Oct 2020 09:02:59: 26000000 INFO @ Fri, 16 Oct 2020 09:03:01: 33000000 INFO @ Fri, 16 Oct 2020 09:03:03: 21000000 INFO @ Fri, 16 Oct 2020 09:03:03: 27000000 INFO @ Fri, 16 Oct 2020 09:03:07: 34000000 INFO @ Fri, 16 Oct 2020 09:03:08: 22000000 INFO @ Fri, 16 Oct 2020 09:03:09: 28000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:03:12: 35000000 INFO @ Fri, 16 Oct 2020 09:03:13: 23000000 INFO @ Fri, 16 Oct 2020 09:03:14: 29000000 INFO @ Fri, 16 Oct 2020 09:03:17: 36000000 INFO @ Fri, 16 Oct 2020 09:03:19: 24000000 INFO @ Fri, 16 Oct 2020 09:03:19: 30000000 INFO @ Fri, 16 Oct 2020 09:03:22: 37000000 INFO @ Fri, 16 Oct 2020 09:03:24: 25000000 INFO @ Fri, 16 Oct 2020 09:03:25: 31000000 INFO @ Fri, 16 Oct 2020 09:03:28: 38000000 INFO @ Fri, 16 Oct 2020 09:03:29: 26000000 INFO @ Fri, 16 Oct 2020 09:03:30: 32000000 INFO @ Fri, 16 Oct 2020 09:03:33: 39000000 INFO @ Fri, 16 Oct 2020 09:03:34: 27000000 INFO @ Fri, 16 Oct 2020 09:03:35: 33000000 INFO @ Fri, 16 Oct 2020 09:03:38: 40000000 INFO @ Fri, 16 Oct 2020 09:03:39: 28000000 INFO @ Fri, 16 Oct 2020 09:03:40: 34000000 INFO @ Fri, 16 Oct 2020 09:03:43: 41000000 INFO @ Fri, 16 Oct 2020 09:03:45: 29000000 INFO @ Fri, 16 Oct 2020 09:03:46: 35000000 INFO @ Fri, 16 Oct 2020 09:03:47: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 09:03:47: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 09:03:47: #1 total tags in treatment: 20055455 INFO @ Fri, 16 Oct 2020 09:03:47: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:03:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:03:47: #1 tags after filtering in treatment: 12455570 INFO @ Fri, 16 Oct 2020 09:03:47: #1 Redundant rate of treatment: 0.38 INFO @ Fri, 16 Oct 2020 09:03:47: #1 finished! INFO @ Fri, 16 Oct 2020 09:03:47: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:03:47: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:03:48: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:03:48: 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 @ Fri, 16 Oct 2020 09:03:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.05_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/SRX4623302/SRX4623302.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:03:50: 30000000 INFO @ Fri, 16 Oct 2020 09:03:51: 36000000 INFO @ Fri, 16 Oct 2020 09:03:55: 31000000 INFO @ Fri, 16 Oct 2020 09:03:56: 37000000 INFO @ Fri, 16 Oct 2020 09:04:00: 32000000 INFO @ Fri, 16 Oct 2020 09:04:01: 38000000 INFO @ Fri, 16 Oct 2020 09:04:05: 33000000 INFO @ Fri, 16 Oct 2020 09:04:06: 39000000 INFO @ Fri, 16 Oct 2020 09:04:10: 34000000 INFO @ Fri, 16 Oct 2020 09:04:12: 40000000 INFO @ Fri, 16 Oct 2020 09:04:15: 35000000 INFO @ Fri, 16 Oct 2020 09:04:17: 41000000 INFO @ Fri, 16 Oct 2020 09:04:20: 36000000 INFO @ Fri, 16 Oct 2020 09:04:20: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 09:04:20: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 09:04:20: #1 total tags in treatment: 20055455 INFO @ Fri, 16 Oct 2020 09:04:20: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:04:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:04:21: #1 tags after filtering in treatment: 12455570 INFO @ Fri, 16 Oct 2020 09:04:21: #1 Redundant rate of treatment: 0.38 INFO @ Fri, 16 Oct 2020 09:04:21: #1 finished! INFO @ Fri, 16 Oct 2020 09:04:21: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:04:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:04:21: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:04:21: 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 @ Fri, 16 Oct 2020 09:04:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.10_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/SRX4623302/SRX4623302.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:04:25: 37000000 INFO @ Fri, 16 Oct 2020 09:04:30: 38000000 INFO @ Fri, 16 Oct 2020 09:04:34: 39000000 INFO @ Fri, 16 Oct 2020 09:04:39: 40000000 INFO @ Fri, 16 Oct 2020 09:04:43: 41000000 INFO @ Fri, 16 Oct 2020 09:04:46: #1 tag size is determined as 25 bps INFO @ Fri, 16 Oct 2020 09:04:46: #1 tag size = 25 INFO @ Fri, 16 Oct 2020 09:04:46: #1 total tags in treatment: 20055455 INFO @ Fri, 16 Oct 2020 09:04:46: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:04:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:04:47: #1 tags after filtering in treatment: 12455570 INFO @ Fri, 16 Oct 2020 09:04:47: #1 Redundant rate of treatment: 0.38 INFO @ Fri, 16 Oct 2020 09:04:47: #1 finished! INFO @ Fri, 16 Oct 2020 09:04:47: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:04:47: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:04:47: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:04:47: 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 @ Fri, 16 Oct 2020 09:04:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.20_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/SRX4623302/SRX4623302.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4623302/SRX4623302.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling