Job ID = 6528416 SRX = SRX5865786 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:54:44 prefetch.2.10.7: 1) Downloading 'SRR9090637'... 2020-06-29T14:54:44 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:58:26 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:58:26 prefetch.2.10.7: 1) 'SRR9090637' was downloaded successfully Read 21459577 spots for SRR9090637/SRR9090637.sra Written 21459577 spots for SRR9090637/SRR9090637.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: 00:42:23 21459577 reads; of these: 21459577 (100.00%) were paired; of these: 4505835 (21.00%) aligned concordantly 0 times 11361009 (52.94%) aligned concordantly exactly 1 time 5592733 (26.06%) aligned concordantly >1 times ---- 4505835 pairs aligned concordantly 0 times; of these: 386799 (8.58%) aligned discordantly 1 time ---- 4119036 pairs aligned 0 times concordantly or discordantly; of these: 8238072 mates make up the pairs; of these: 7322812 (88.89%) aligned 0 times 508858 (6.18%) aligned exactly 1 time 406402 (4.93%) aligned >1 times 82.94% overall alignment rate Time searching: 00:42:23 Overall time: 00:42:23 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 16 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] 1811966 / 17263319 = 0.1050 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 01:05:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.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 01:05:32: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:05:32: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:05:38: 1000000 INFO @ Tue, 30 Jun 2020 01:05:44: 2000000 INFO @ Tue, 30 Jun 2020 01:05:51: 3000000 INFO @ Tue, 30 Jun 2020 01:05:57: 4000000 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 01:06:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.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 01:06:02: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:06:02: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:06:03: 5000000 INFO @ Tue, 30 Jun 2020 01:06:09: 1000000 INFO @ Tue, 30 Jun 2020 01:06:10: 6000000 INFO @ Tue, 30 Jun 2020 01:06:15: 2000000 INFO @ Tue, 30 Jun 2020 01:06:17: 7000000 INFO @ Tue, 30 Jun 2020 01:06:22: 3000000 INFO @ Tue, 30 Jun 2020 01:06:23: 8000000 INFO @ Tue, 30 Jun 2020 01:06:29: 4000000 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 01:06:30: 9000000 INFO @ Tue, 30 Jun 2020 01:06:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.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 01:06:32: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:06:32: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:06:35: 5000000 INFO @ Tue, 30 Jun 2020 01:06:37: 10000000 INFO @ Tue, 30 Jun 2020 01:06:39: 1000000 INFO @ Tue, 30 Jun 2020 01:06:42: 6000000 INFO @ Tue, 30 Jun 2020 01:06:44: 11000000 INFO @ Tue, 30 Jun 2020 01:06:46: 2000000 INFO @ Tue, 30 Jun 2020 01:06:49: 7000000 INFO @ Tue, 30 Jun 2020 01:06:51: 12000000 INFO @ Tue, 30 Jun 2020 01:06:52: 3000000 INFO @ Tue, 30 Jun 2020 01:06:55: 8000000 INFO @ Tue, 30 Jun 2020 01:06:58: 13000000 INFO @ Tue, 30 Jun 2020 01:06:59: 4000000 INFO @ Tue, 30 Jun 2020 01:07:02: 9000000 INFO @ Tue, 30 Jun 2020 01:07:04: 14000000 INFO @ Tue, 30 Jun 2020 01:07:06: 5000000 INFO @ Tue, 30 Jun 2020 01:07:09: 10000000 INFO @ Tue, 30 Jun 2020 01:07:11: 15000000 INFO @ Tue, 30 Jun 2020 01:07:13: 6000000 INFO @ Tue, 30 Jun 2020 01:07:15: 11000000 INFO @ Tue, 30 Jun 2020 01:07:18: 16000000 INFO @ Tue, 30 Jun 2020 01:07:19: 7000000 INFO @ Tue, 30 Jun 2020 01:07:22: 12000000 INFO @ Tue, 30 Jun 2020 01:07:25: 17000000 INFO @ Tue, 30 Jun 2020 01:07:26: 8000000 INFO @ Tue, 30 Jun 2020 01:07:29: 13000000 INFO @ Tue, 30 Jun 2020 01:07:31: 18000000 INFO @ Tue, 30 Jun 2020 01:07:33: 9000000 INFO @ Tue, 30 Jun 2020 01:07:35: 14000000 INFO @ Tue, 30 Jun 2020 01:07:38: 19000000 INFO @ Tue, 30 Jun 2020 01:07:40: 10000000 INFO @ Tue, 30 Jun 2020 01:07:42: 15000000 INFO @ Tue, 30 Jun 2020 01:07:45: 20000000 INFO @ Tue, 30 Jun 2020 01:07:46: 11000000 INFO @ Tue, 30 Jun 2020 01:07:49: 16000000 INFO @ Tue, 30 Jun 2020 01:07:52: 21000000 INFO @ Tue, 30 Jun 2020 01:07:53: 12000000 INFO @ Tue, 30 Jun 2020 01:07:56: 17000000 INFO @ Tue, 30 Jun 2020 01:07:59: 22000000 INFO @ Tue, 30 Jun 2020 01:08:00: 13000000 INFO @ Tue, 30 Jun 2020 01:08:02: 18000000 INFO @ Tue, 30 Jun 2020 01:08:06: 23000000 INFO @ Tue, 30 Jun 2020 01:08:07: 14000000 INFO @ Tue, 30 Jun 2020 01:08:09: 19000000 INFO @ Tue, 30 Jun 2020 01:08:12: 24000000 INFO @ Tue, 30 Jun 2020 01:08:14: 15000000 INFO @ Tue, 30 Jun 2020 01:08:16: 20000000 INFO @ Tue, 30 Jun 2020 01:08:19: 25000000 INFO @ Tue, 30 Jun 2020 01:08:21: 16000000 INFO @ Tue, 30 Jun 2020 01:08:22: 21000000 INFO @ Tue, 30 Jun 2020 01:08:26: 26000000 INFO @ Tue, 30 Jun 2020 01:08:27: 17000000 INFO @ Tue, 30 Jun 2020 01:08:29: 22000000 INFO @ Tue, 30 Jun 2020 01:08:33: 27000000 INFO @ Tue, 30 Jun 2020 01:08:34: 18000000 INFO @ Tue, 30 Jun 2020 01:08:36: 23000000 INFO @ Tue, 30 Jun 2020 01:08:40: 28000000 INFO @ Tue, 30 Jun 2020 01:08:41: 19000000 INFO @ Tue, 30 Jun 2020 01:08:42: 24000000 INFO @ Tue, 30 Jun 2020 01:08:46: 29000000 INFO @ Tue, 30 Jun 2020 01:08:48: 20000000 INFO @ Tue, 30 Jun 2020 01:08:49: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:08:53: 30000000 INFO @ Tue, 30 Jun 2020 01:08:55: 21000000 INFO @ Tue, 30 Jun 2020 01:08:56: 26000000 INFO @ Tue, 30 Jun 2020 01:09:00: 31000000 INFO @ Tue, 30 Jun 2020 01:09:02: 22000000 INFO @ Tue, 30 Jun 2020 01:09:02: 27000000 INFO @ Tue, 30 Jun 2020 01:09:07: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:09:07: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:09:07: #1 total tags in treatment: 15157042 INFO @ Tue, 30 Jun 2020 01:09:07: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:09:07: #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 01:09:07: #1 tags after filtering in treatment: 13149873 INFO @ Tue, 30 Jun 2020 01:09:07: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 30 Jun 2020 01:09:07: #1 finished! INFO @ Tue, 30 Jun 2020 01:09:07: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:09:07: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:09:08: #2 number of paired peaks: 27 WARNING @ Tue, 30 Jun 2020 01:09:08: Too few paired peaks (27) 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 01:09:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.05_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/dm3/SRX5865786/SRX5865786.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:09:09: 23000000 INFO @ Tue, 30 Jun 2020 01:09:09: 28000000 INFO @ Tue, 30 Jun 2020 01:09:16: 24000000 INFO @ Tue, 30 Jun 2020 01:09:16: 29000000 INFO @ Tue, 30 Jun 2020 01:09:23: 25000000 INFO @ Tue, 30 Jun 2020 01:09:23: 30000000 INFO @ Tue, 30 Jun 2020 01:09:29: 26000000 INFO @ Tue, 30 Jun 2020 01:09:29: 31000000 INFO @ Tue, 30 Jun 2020 01:09:36: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:09:36: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:09:36: #1 total tags in treatment: 15157042 INFO @ Tue, 30 Jun 2020 01:09:36: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:09:36: #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 01:09:36: 27000000 INFO @ Tue, 30 Jun 2020 01:09:36: #1 tags after filtering in treatment: 13149873 INFO @ Tue, 30 Jun 2020 01:09:36: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 30 Jun 2020 01:09:36: #1 finished! INFO @ Tue, 30 Jun 2020 01:09:36: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:09:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:09:37: #2 number of paired peaks: 27 WARNING @ Tue, 30 Jun 2020 01:09:37: Too few paired peaks (27) 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 01:09:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.10_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/SRX5865786/SRX5865786.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:09:42: 28000000 INFO @ Tue, 30 Jun 2020 01:09:49: 29000000 INFO @ Tue, 30 Jun 2020 01:09:55: 30000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:10:01: 31000000 INFO @ Tue, 30 Jun 2020 01:10:07: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:10:07: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:10:07: #1 total tags in treatment: 15157042 INFO @ Tue, 30 Jun 2020 01:10:07: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:10:07: #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 01:10:07: #1 tags after filtering in treatment: 13149873 INFO @ Tue, 30 Jun 2020 01:10:07: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 30 Jun 2020 01:10:07: #1 finished! INFO @ Tue, 30 Jun 2020 01:10:07: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:10:07: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:10:08: #2 number of paired peaks: 27 WARNING @ Tue, 30 Jun 2020 01:10:08: Too few paired peaks (27) 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 01:10:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.20_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/SRX5865786/SRX5865786.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865786/SRX5865786.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling