Job ID = 6528366 SRX = SRX5431047 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:50:58 prefetch.2.10.7: 1) Downloading 'SRR8632346'... 2020-06-29T14:50:58 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:54:16 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:54:16 prefetch.2.10.7: 1) 'SRR8632346' was downloaded successfully Read 19201674 spots for SRR8632346/SRR8632346.sra Written 19201674 spots for SRR8632346/SRR8632346.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: 00:34:01 19201674 reads; of these: 19201674 (100.00%) were paired; of these: 2804426 (14.61%) aligned concordantly 0 times 11445708 (59.61%) aligned concordantly exactly 1 time 4951540 (25.79%) aligned concordantly >1 times ---- 2804426 pairs aligned concordantly 0 times; of these: 65515 (2.34%) aligned discordantly 1 time ---- 2738911 pairs aligned 0 times concordantly or discordantly; of these: 5477822 mates make up the pairs; of these: 4817691 (87.95%) aligned 0 times 363718 (6.64%) aligned exactly 1 time 296413 (5.41%) aligned >1 times 87.46% overall alignment rate Time searching: 00:34:01 Overall time: 00:34:01 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] 1676190 / 16437025 = 0.1020 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 00:46:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.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 00:46:39: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:46:39: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:46:44: 1000000 INFO @ Tue, 30 Jun 2020 00:46:49: 2000000 INFO @ Tue, 30 Jun 2020 00:46:55: 3000000 INFO @ Tue, 30 Jun 2020 00:47:00: 4000000 INFO @ Tue, 30 Jun 2020 00:47:05: 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 00:47:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.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 00:47:09: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:47:09: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:47:11: 6000000 INFO @ Tue, 30 Jun 2020 00:47:14: 1000000 INFO @ Tue, 30 Jun 2020 00:47:16: 7000000 INFO @ Tue, 30 Jun 2020 00:47:19: 2000000 INFO @ Tue, 30 Jun 2020 00:47:22: 8000000 INFO @ Tue, 30 Jun 2020 00:47:25: 3000000 INFO @ Tue, 30 Jun 2020 00:47:27: 9000000 INFO @ Tue, 30 Jun 2020 00:47:30: 4000000 INFO @ Tue, 30 Jun 2020 00:47:32: 10000000 INFO @ Tue, 30 Jun 2020 00:47:35: 5000000 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 00:47:38: 11000000 INFO @ Tue, 30 Jun 2020 00:47:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.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 00:47:39: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:47:39: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:47:41: 6000000 INFO @ Tue, 30 Jun 2020 00:47:43: 12000000 INFO @ Tue, 30 Jun 2020 00:47:43: 1000000 INFO @ Tue, 30 Jun 2020 00:47:46: 7000000 INFO @ Tue, 30 Jun 2020 00:47:48: 2000000 INFO @ Tue, 30 Jun 2020 00:47:49: 13000000 INFO @ Tue, 30 Jun 2020 00:47:52: 8000000 INFO @ Tue, 30 Jun 2020 00:47:53: 3000000 INFO @ Tue, 30 Jun 2020 00:47:55: 14000000 INFO @ Tue, 30 Jun 2020 00:47:58: 9000000 INFO @ Tue, 30 Jun 2020 00:47:58: 4000000 INFO @ Tue, 30 Jun 2020 00:48:00: 15000000 INFO @ Tue, 30 Jun 2020 00:48:03: 5000000 INFO @ Tue, 30 Jun 2020 00:48:03: 10000000 INFO @ Tue, 30 Jun 2020 00:48:06: 16000000 INFO @ Tue, 30 Jun 2020 00:48:08: 6000000 INFO @ Tue, 30 Jun 2020 00:48:09: 11000000 INFO @ Tue, 30 Jun 2020 00:48:11: 17000000 INFO @ Tue, 30 Jun 2020 00:48:12: 7000000 INFO @ Tue, 30 Jun 2020 00:48:15: 12000000 INFO @ Tue, 30 Jun 2020 00:48:17: 18000000 INFO @ Tue, 30 Jun 2020 00:48:17: 8000000 INFO @ Tue, 30 Jun 2020 00:48:20: 13000000 INFO @ Tue, 30 Jun 2020 00:48:22: 9000000 INFO @ Tue, 30 Jun 2020 00:48:23: 19000000 INFO @ Tue, 30 Jun 2020 00:48:25: 14000000 INFO @ Tue, 30 Jun 2020 00:48:27: 10000000 INFO @ Tue, 30 Jun 2020 00:48:28: 20000000 INFO @ Tue, 30 Jun 2020 00:48:31: 15000000 INFO @ Tue, 30 Jun 2020 00:48:32: 11000000 INFO @ Tue, 30 Jun 2020 00:48:34: 21000000 INFO @ Tue, 30 Jun 2020 00:48:36: 16000000 INFO @ Tue, 30 Jun 2020 00:48:36: 12000000 INFO @ Tue, 30 Jun 2020 00:48:39: 22000000 INFO @ Tue, 30 Jun 2020 00:48:41: 13000000 INFO @ Tue, 30 Jun 2020 00:48:42: 17000000 INFO @ Tue, 30 Jun 2020 00:48:45: 23000000 INFO @ Tue, 30 Jun 2020 00:48:46: 14000000 INFO @ Tue, 30 Jun 2020 00:48:47: 18000000 INFO @ Tue, 30 Jun 2020 00:48:50: 24000000 INFO @ Tue, 30 Jun 2020 00:48:51: 15000000 INFO @ Tue, 30 Jun 2020 00:48:53: 19000000 INFO @ Tue, 30 Jun 2020 00:48:55: 25000000 INFO @ Tue, 30 Jun 2020 00:48:56: 16000000 INFO @ Tue, 30 Jun 2020 00:48:58: 20000000 INFO @ Tue, 30 Jun 2020 00:49:00: 17000000 INFO @ Tue, 30 Jun 2020 00:49:01: 26000000 INFO @ Tue, 30 Jun 2020 00:49:03: 21000000 INFO @ Tue, 30 Jun 2020 00:49:05: 18000000 INFO @ Tue, 30 Jun 2020 00:49:06: 27000000 INFO @ Tue, 30 Jun 2020 00:49:09: 22000000 INFO @ Tue, 30 Jun 2020 00:49:10: 19000000 INFO @ Tue, 30 Jun 2020 00:49:12: 28000000 INFO @ Tue, 30 Jun 2020 00:49:14: 23000000 INFO @ Tue, 30 Jun 2020 00:49:15: 20000000 INFO @ Tue, 30 Jun 2020 00:49:17: 29000000 INFO @ Tue, 30 Jun 2020 00:49:19: 21000000 INFO @ Tue, 30 Jun 2020 00:49:20: 24000000 INFO @ Tue, 30 Jun 2020 00:49:22: 30000000 INFO @ Tue, 30 Jun 2020 00:49:24: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:49:24: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:49:24: #1 total tags in treatment: 14722991 INFO @ Tue, 30 Jun 2020 00:49:24: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:49:24: #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 00:49:24: #1 tags after filtering in treatment: 12647964 INFO @ Tue, 30 Jun 2020 00:49:24: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 30 Jun 2020 00:49:24: #1 finished! INFO @ Tue, 30 Jun 2020 00:49:24: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:49:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:49:24: 22000000 INFO @ Tue, 30 Jun 2020 00:49:25: #2 number of paired peaks: 73 WARNING @ Tue, 30 Jun 2020 00:49:25: Too few paired peaks (73) 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 00:49:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.05_peaks.narrowPeak: No such file or directory INFO @ Tue, 30 Jun 2020 00:49:25: 25000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:49:29: 23000000 INFO @ Tue, 30 Jun 2020 00:49:30: 26000000 INFO @ Tue, 30 Jun 2020 00:49:34: 24000000 INFO @ Tue, 30 Jun 2020 00:49:36: 27000000 INFO @ Tue, 30 Jun 2020 00:49:38: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:49:41: 28000000 INFO @ Tue, 30 Jun 2020 00:49:43: 26000000 INFO @ Tue, 30 Jun 2020 00:49:46: 29000000 INFO @ Tue, 30 Jun 2020 00:49:48: 27000000 INFO @ Tue, 30 Jun 2020 00:49:52: 30000000 INFO @ Tue, 30 Jun 2020 00:49:53: 28000000 INFO @ Tue, 30 Jun 2020 00:49:53: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:49:53: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:49:53: #1 total tags in treatment: 14722991 INFO @ Tue, 30 Jun 2020 00:49:53: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:49:53: #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 00:49:53: #1 tags after filtering in treatment: 12647964 INFO @ Tue, 30 Jun 2020 00:49:53: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 30 Jun 2020 00:49:53: #1 finished! INFO @ Tue, 30 Jun 2020 00:49:53: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:49:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:49:54: #2 number of paired peaks: 73 WARNING @ Tue, 30 Jun 2020 00:49:54: Too few paired peaks (73) 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 00:49:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.10_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/SRX5431047/SRX5431047.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:49:57: 29000000 INFO @ Tue, 30 Jun 2020 00:50:02: 30000000 INFO @ Tue, 30 Jun 2020 00:50:03: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:50:03: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:50:03: #1 total tags in treatment: 14722991 INFO @ Tue, 30 Jun 2020 00:50:03: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:50:03: #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 00:50:03: #1 tags after filtering in treatment: 12647964 INFO @ Tue, 30 Jun 2020 00:50:03: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 30 Jun 2020 00:50:03: #1 finished! INFO @ Tue, 30 Jun 2020 00:50:03: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:50:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:50:04: #2 number of paired peaks: 73 WARNING @ Tue, 30 Jun 2020 00:50:04: Too few paired peaks (73) 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 00:50:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.20_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/SRX5431047/SRX5431047.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431047/SRX5431047.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。