Job ID = 6528373 SRX = SRX5431055 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:52:43 prefetch.2.10.7: 1) Downloading 'SRR8632354'... 2020-06-29T14:52:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:57:17 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:57:17 prefetch.2.10.7: 1) 'SRR8632354' was downloaded successfully Read 28807914 spots for SRR8632354/SRR8632354.sra Written 28807914 spots for SRR8632354/SRR8632354.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: 01:23:58 28807914 reads; of these: 28807914 (100.00%) were paired; of these: 3514298 (12.20%) aligned concordantly 0 times 16773321 (58.22%) aligned concordantly exactly 1 time 8520295 (29.58%) aligned concordantly >1 times ---- 3514298 pairs aligned concordantly 0 times; of these: 443210 (12.61%) aligned discordantly 1 time ---- 3071088 pairs aligned 0 times concordantly or discordantly; of these: 6142176 mates make up the pairs; of these: 5019383 (81.72%) aligned 0 times 604334 (9.84%) aligned exactly 1 time 518459 (8.44%) aligned >1 times 91.29% overall alignment rate Time searching: 01:23:58 Overall time: 01:23:58 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 24 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 2132378 / 25645792 = 0.0831 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 @ Tue, 30 Jun 2020 01:58:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 01:58:32: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:58:32: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:58:37: 1000000 INFO @ Tue, 30 Jun 2020 01:58:42: 2000000 INFO @ Tue, 30 Jun 2020 01:58:47: 3000000 INFO @ Tue, 30 Jun 2020 01:58:52: 4000000 INFO @ Tue, 30 Jun 2020 01:58:57: 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 @ Tue, 30 Jun 2020 01:59:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 01:59:02: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:59:02: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:59:03: 6000000 INFO @ Tue, 30 Jun 2020 01:59:08: 1000000 INFO @ Tue, 30 Jun 2020 01:59:08: 7000000 INFO @ Tue, 30 Jun 2020 01:59:13: 2000000 INFO @ Tue, 30 Jun 2020 01:59:14: 8000000 INFO @ Tue, 30 Jun 2020 01:59:19: 3000000 INFO @ Tue, 30 Jun 2020 01:59:20: 9000000 INFO @ Tue, 30 Jun 2020 01:59:25: 4000000 INFO @ Tue, 30 Jun 2020 01:59:25: 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 @ Tue, 30 Jun 2020 01:59:30: 5000000 INFO @ Tue, 30 Jun 2020 01:59:31: 11000000 INFO @ Tue, 30 Jun 2020 01:59:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 01:59:32: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:59:32: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:59:36: 6000000 INFO @ Tue, 30 Jun 2020 01:59:37: 12000000 INFO @ Tue, 30 Jun 2020 01:59:38: 1000000 INFO @ Tue, 30 Jun 2020 01:59:42: 7000000 INFO @ Tue, 30 Jun 2020 01:59:43: 13000000 INFO @ Tue, 30 Jun 2020 01:59:44: 2000000 INFO @ Tue, 30 Jun 2020 01:59:49: 8000000 INFO @ Tue, 30 Jun 2020 01:59:49: 14000000 INFO @ Tue, 30 Jun 2020 01:59:50: 3000000 INFO @ Tue, 30 Jun 2020 01:59:54: 9000000 INFO @ Tue, 30 Jun 2020 01:59:55: 15000000 INFO @ Tue, 30 Jun 2020 01:59:56: 4000000 INFO @ Tue, 30 Jun 2020 02:00:00: 10000000 INFO @ Tue, 30 Jun 2020 02:00:01: 16000000 INFO @ Tue, 30 Jun 2020 02:00:02: 5000000 INFO @ Tue, 30 Jun 2020 02:00:06: 11000000 INFO @ Tue, 30 Jun 2020 02:00:07: 17000000 INFO @ Tue, 30 Jun 2020 02:00:08: 6000000 INFO @ Tue, 30 Jun 2020 02:00:12: 12000000 INFO @ Tue, 30 Jun 2020 02:00:13: 18000000 INFO @ Tue, 30 Jun 2020 02:00:14: 7000000 INFO @ Tue, 30 Jun 2020 02:00:18: 13000000 INFO @ Tue, 30 Jun 2020 02:00:19: 19000000 INFO @ Tue, 30 Jun 2020 02:00:20: 8000000 INFO @ Tue, 30 Jun 2020 02:00:24: 14000000 INFO @ Tue, 30 Jun 2020 02:00:25: 20000000 INFO @ Tue, 30 Jun 2020 02:00:25: 9000000 INFO @ Tue, 30 Jun 2020 02:00:30: 15000000 INFO @ Tue, 30 Jun 2020 02:00:31: 21000000 INFO @ Tue, 30 Jun 2020 02:00:31: 10000000 INFO @ Tue, 30 Jun 2020 02:00:36: 16000000 INFO @ Tue, 30 Jun 2020 02:00:37: 22000000 INFO @ Tue, 30 Jun 2020 02:00:37: 11000000 INFO @ Tue, 30 Jun 2020 02:00:42: 17000000 INFO @ Tue, 30 Jun 2020 02:00:43: 23000000 INFO @ Tue, 30 Jun 2020 02:00:43: 12000000 INFO @ Tue, 30 Jun 2020 02:00:47: 18000000 INFO @ Tue, 30 Jun 2020 02:00:48: 24000000 INFO @ Tue, 30 Jun 2020 02:00:49: 13000000 INFO @ Tue, 30 Jun 2020 02:00:53: 19000000 INFO @ Tue, 30 Jun 2020 02:00:54: 25000000 INFO @ Tue, 30 Jun 2020 02:00:55: 14000000 INFO @ Tue, 30 Jun 2020 02:00:59: 20000000 INFO @ Tue, 30 Jun 2020 02:01:00: 26000000 INFO @ Tue, 30 Jun 2020 02:01:00: 15000000 INFO @ Tue, 30 Jun 2020 02:01:05: 21000000 INFO @ Tue, 30 Jun 2020 02:01:06: 27000000 INFO @ Tue, 30 Jun 2020 02:01:06: 16000000 INFO @ Tue, 30 Jun 2020 02:01:11: 22000000 INFO @ Tue, 30 Jun 2020 02:01:12: 28000000 INFO @ Tue, 30 Jun 2020 02:01:12: 17000000 INFO @ Tue, 30 Jun 2020 02:01:17: 23000000 INFO @ Tue, 30 Jun 2020 02:01:17: 29000000 INFO @ Tue, 30 Jun 2020 02:01:18: 18000000 INFO @ Tue, 30 Jun 2020 02:01:22: 24000000 INFO @ Tue, 30 Jun 2020 02:01:23: 30000000 INFO @ Tue, 30 Jun 2020 02:01:24: 19000000 INFO @ Tue, 30 Jun 2020 02:01:28: 25000000 INFO @ Tue, 30 Jun 2020 02:01:29: 31000000 INFO @ Tue, 30 Jun 2020 02:01:29: 20000000 INFO @ Tue, 30 Jun 2020 02:01:34: 26000000 INFO @ Tue, 30 Jun 2020 02:01:35: 32000000 INFO @ Tue, 30 Jun 2020 02:01:35: 21000000 INFO @ Tue, 30 Jun 2020 02:01:40: 27000000 INFO @ Tue, 30 Jun 2020 02:01:41: 33000000 INFO @ Tue, 30 Jun 2020 02:01:41: 22000000 INFO @ Tue, 30 Jun 2020 02:01:46: 28000000 INFO @ Tue, 30 Jun 2020 02:01:47: 34000000 INFO @ Tue, 30 Jun 2020 02:01:47: 23000000 INFO @ Tue, 30 Jun 2020 02:01:51: 29000000 INFO @ Tue, 30 Jun 2020 02:01:52: 35000000 INFO @ Tue, 30 Jun 2020 02:01:53: 24000000 INFO @ Tue, 30 Jun 2020 02:01:57: 30000000 INFO @ Tue, 30 Jun 2020 02:01:58: 36000000 INFO @ Tue, 30 Jun 2020 02:01:59: 25000000 INFO @ Tue, 30 Jun 2020 02:02:03: 31000000 INFO @ Tue, 30 Jun 2020 02:02:04: 37000000 INFO @ Tue, 30 Jun 2020 02:02:04: 26000000 INFO @ Tue, 30 Jun 2020 02:02:09: 32000000 INFO @ Tue, 30 Jun 2020 02:02:10: 38000000 INFO @ Tue, 30 Jun 2020 02:02:10: 27000000 INFO @ Tue, 30 Jun 2020 02:02:14: 33000000 INFO @ Tue, 30 Jun 2020 02:02:16: 39000000 INFO @ Tue, 30 Jun 2020 02:02:16: 28000000 INFO @ Tue, 30 Jun 2020 02:02:20: 34000000 INFO @ Tue, 30 Jun 2020 02:02:21: 40000000 INFO @ Tue, 30 Jun 2020 02:02:22: 29000000 INFO @ Tue, 30 Jun 2020 02:02:26: 35000000 INFO @ Tue, 30 Jun 2020 02:02:27: 41000000 INFO @ Tue, 30 Jun 2020 02:02:27: 30000000 INFO @ Tue, 30 Jun 2020 02:02:32: 36000000 INFO @ Tue, 30 Jun 2020 02:02:33: 42000000 INFO @ Tue, 30 Jun 2020 02:02:33: 31000000 INFO @ Tue, 30 Jun 2020 02:02:38: 37000000 INFO @ Tue, 30 Jun 2020 02:02:39: 32000000 INFO @ Tue, 30 Jun 2020 02:02:39: 43000000 INFO @ Tue, 30 Jun 2020 02:02:44: 38000000 INFO @ Tue, 30 Jun 2020 02:02:45: 33000000 INFO @ Tue, 30 Jun 2020 02:02:45: 44000000 INFO @ Tue, 30 Jun 2020 02:02:49: 39000000 INFO @ Tue, 30 Jun 2020 02:02:51: 34000000 INFO @ Tue, 30 Jun 2020 02:02:51: 45000000 INFO @ Tue, 30 Jun 2020 02:02:55: 40000000 INFO @ Tue, 30 Jun 2020 02:02:57: 35000000 INFO @ Tue, 30 Jun 2020 02:02:57: 46000000 INFO @ Tue, 30 Jun 2020 02:03:01: 41000000 INFO @ Tue, 30 Jun 2020 02:03:03: 36000000 INFO @ Tue, 30 Jun 2020 02:03:03: 47000000 INFO @ Tue, 30 Jun 2020 02:03:07: 42000000 INFO @ Tue, 30 Jun 2020 02:03:09: 37000000 INFO @ Tue, 30 Jun 2020 02:03:09: 48000000 INFO @ Tue, 30 Jun 2020 02:03:12: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:03:12: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:03:12: #1 total tags in treatment: 23174878 INFO @ Tue, 30 Jun 2020 02:03:12: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:03:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:03:12: #1 tags after filtering in treatment: 19222951 INFO @ Tue, 30 Jun 2020 02:03:12: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 30 Jun 2020 02:03:12: #1 finished! INFO @ Tue, 30 Jun 2020 02:03:12: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:03:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:03:13: 43000000 INFO @ Tue, 30 Jun 2020 02:03:14: #2 number of paired peaks: 5 WARNING @ Tue, 30 Jun 2020 02:03:14: Too few paired peaks (5) 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 @ Tue, 30 Jun 2020 02:03:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.05_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/dm3/SRX5431055/SRX5431055.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:03:14: 38000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:03:19: 44000000 INFO @ Tue, 30 Jun 2020 02:03:20: 39000000 INFO @ Tue, 30 Jun 2020 02:03:24: 45000000 INFO @ Tue, 30 Jun 2020 02:03:25: 40000000 INFO @ Tue, 30 Jun 2020 02:03:30: 46000000 INFO @ Tue, 30 Jun 2020 02:03:31: 41000000 INFO @ Tue, 30 Jun 2020 02:03:36: 47000000 INFO @ Tue, 30 Jun 2020 02:03:36: 42000000 INFO @ Tue, 30 Jun 2020 02:03:41: 48000000 INFO @ Tue, 30 Jun 2020 02:03:42: 43000000 INFO @ Tue, 30 Jun 2020 02:03:43: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:03:43: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:03:43: #1 total tags in treatment: 23174878 INFO @ Tue, 30 Jun 2020 02:03:43: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:03:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:03:44: #1 tags after filtering in treatment: 19222951 INFO @ Tue, 30 Jun 2020 02:03:44: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 30 Jun 2020 02:03:44: #1 finished! INFO @ Tue, 30 Jun 2020 02:03:44: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:03:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:03:45: #2 number of paired peaks: 5 WARNING @ Tue, 30 Jun 2020 02:03:45: Too few paired peaks (5) 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 @ Tue, 30 Jun 2020 02:03:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.10_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/dm3/SRX5431055/SRX5431055.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:03:47: 44000000 INFO @ Tue, 30 Jun 2020 02:03:52: 45000000 INFO @ Tue, 30 Jun 2020 02:03:57: 46000000 INFO @ Tue, 30 Jun 2020 02:04:02: 47000000 INFO @ Tue, 30 Jun 2020 02:04:07: 48000000 INFO @ Tue, 30 Jun 2020 02:04:09: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:04:09: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:04:09: #1 total tags in treatment: 23174878 INFO @ Tue, 30 Jun 2020 02:04:09: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:04:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 02:04:10: #1 tags after filtering in treatment: 19222951 INFO @ Tue, 30 Jun 2020 02:04:10: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 30 Jun 2020 02:04:10: #1 finished! INFO @ Tue, 30 Jun 2020 02:04:10: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:04:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:04:11: #2 number of paired peaks: 5 WARNING @ Tue, 30 Jun 2020 02:04:11: Too few paired peaks (5) 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 @ Tue, 30 Jun 2020 02:04:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.20_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/dm3/SRX5431055/SRX5431055.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431055/SRX5431055.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。