Job ID = 6626999 SRX = SRX7988222 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-07-14T00:15:43 prefetch.2.10.7: 1) Downloading 'SRR11409520'... 2020-07-14T00:15:43 prefetch.2.10.7: Downloading via HTTPS... 2020-07-14T00:18:47 prefetch.2.10.7: HTTPS download succeed 2020-07-14T00:18:47 prefetch.2.10.7: 1) 'SRR11409520' was downloaded successfully 2020-07-14T00:18:47 prefetch.2.10.7: 'SRR11409520' has 0 unresolved dependencies Read 23132655 spots for SRR11409520/SRR11409520.sra Written 23132655 spots for SRR11409520/SRR11409520.sra fastq に変換しました。 bowtie でマッピング中... Your job 6627399 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 01:10:29 23132655 reads; of these: 23132655 (100.00%) were paired; of these: 3642284 (15.75%) aligned concordantly 0 times 13170645 (56.94%) aligned concordantly exactly 1 time 6319726 (27.32%) aligned concordantly >1 times ---- 3642284 pairs aligned concordantly 0 times; of these: 1421727 (39.03%) aligned discordantly 1 time ---- 2220557 pairs aligned 0 times concordantly or discordantly; of these: 4441114 mates make up the pairs; of these: 2303401 (51.87%) aligned 0 times 779209 (17.55%) aligned exactly 1 time 1358504 (30.59%) aligned >1 times 95.02% overall alignment rate Time searching: 01:10:29 Overall time: 01:10:29 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 20 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] 1879897 / 20820167 = 0.0903 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, 14 Jul 2020 10:42:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.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, 14 Jul 2020 10:42:27: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:42:27: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:42:33: 1000000 INFO @ Tue, 14 Jul 2020 10:42:38: 2000000 INFO @ Tue, 14 Jul 2020 10:42:45: 3000000 INFO @ Tue, 14 Jul 2020 10:42:51: 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, 14 Jul 2020 10:42:56: 5000000 INFO @ Tue, 14 Jul 2020 10:42:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.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, 14 Jul 2020 10:42:57: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:42:57: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:43:01: 6000000 INFO @ Tue, 14 Jul 2020 10:43:03: 1000000 INFO @ Tue, 14 Jul 2020 10:43:07: 7000000 INFO @ Tue, 14 Jul 2020 10:43:08: 2000000 INFO @ Tue, 14 Jul 2020 10:43:13: 8000000 INFO @ Tue, 14 Jul 2020 10:43:13: 3000000 INFO @ Tue, 14 Jul 2020 10:43:18: 4000000 INFO @ Tue, 14 Jul 2020 10:43:19: 9000000 INFO @ Tue, 14 Jul 2020 10:43:24: 5000000 INFO @ Tue, 14 Jul 2020 10:43:25: 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, 14 Jul 2020 10:43:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.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, 14 Jul 2020 10:43:27: #1 read tag files... INFO @ Tue, 14 Jul 2020 10:43:27: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 10:43:29: 6000000 INFO @ Tue, 14 Jul 2020 10:43:31: 11000000 INFO @ Tue, 14 Jul 2020 10:43:33: 1000000 INFO @ Tue, 14 Jul 2020 10:43:34: 7000000 INFO @ Tue, 14 Jul 2020 10:43:38: 12000000 INFO @ Tue, 14 Jul 2020 10:43:39: 2000000 INFO @ Tue, 14 Jul 2020 10:43:40: 8000000 INFO @ Tue, 14 Jul 2020 10:43:44: 13000000 INFO @ Tue, 14 Jul 2020 10:43:45: 3000000 INFO @ Tue, 14 Jul 2020 10:43:46: 9000000 INFO @ Tue, 14 Jul 2020 10:43:50: 14000000 INFO @ Tue, 14 Jul 2020 10:43:50: 4000000 INFO @ Tue, 14 Jul 2020 10:43:53: 10000000 INFO @ Tue, 14 Jul 2020 10:43:56: 5000000 INFO @ Tue, 14 Jul 2020 10:43:56: 15000000 INFO @ Tue, 14 Jul 2020 10:43:58: 11000000 INFO @ Tue, 14 Jul 2020 10:44:01: 6000000 INFO @ Tue, 14 Jul 2020 10:44:02: 16000000 INFO @ Tue, 14 Jul 2020 10:44:04: 12000000 INFO @ Tue, 14 Jul 2020 10:44:06: 7000000 INFO @ Tue, 14 Jul 2020 10:44:09: 17000000 INFO @ Tue, 14 Jul 2020 10:44:10: 13000000 INFO @ Tue, 14 Jul 2020 10:44:15: 18000000 INFO @ Tue, 14 Jul 2020 10:44:15: 8000000 INFO @ Tue, 14 Jul 2020 10:44:17: 14000000 INFO @ Tue, 14 Jul 2020 10:44:20: 19000000 INFO @ Tue, 14 Jul 2020 10:44:23: 15000000 INFO @ Tue, 14 Jul 2020 10:44:24: 9000000 INFO @ Tue, 14 Jul 2020 10:44:26: 20000000 INFO @ Tue, 14 Jul 2020 10:44:29: 16000000 INFO @ Tue, 14 Jul 2020 10:44:32: 10000000 INFO @ Tue, 14 Jul 2020 10:44:32: 21000000 INFO @ Tue, 14 Jul 2020 10:44:35: 17000000 INFO @ Tue, 14 Jul 2020 10:44:38: 11000000 INFO @ Tue, 14 Jul 2020 10:44:39: 22000000 INFO @ Tue, 14 Jul 2020 10:44:41: 18000000 INFO @ Tue, 14 Jul 2020 10:44:44: 12000000 INFO @ Tue, 14 Jul 2020 10:44:44: 23000000 INFO @ Tue, 14 Jul 2020 10:44:48: 19000000 INFO @ Tue, 14 Jul 2020 10:44:50: 24000000 INFO @ Tue, 14 Jul 2020 10:44:50: 13000000 INFO @ Tue, 14 Jul 2020 10:44:54: 20000000 INFO @ Tue, 14 Jul 2020 10:44:55: 25000000 INFO @ Tue, 14 Jul 2020 10:44:56: 14000000 INFO @ Tue, 14 Jul 2020 10:45:00: 21000000 INFO @ Tue, 14 Jul 2020 10:45:00: 26000000 INFO @ Tue, 14 Jul 2020 10:45:02: 15000000 INFO @ Tue, 14 Jul 2020 10:45:06: 27000000 INFO @ Tue, 14 Jul 2020 10:45:06: 22000000 INFO @ Tue, 14 Jul 2020 10:45:09: 16000000 INFO @ Tue, 14 Jul 2020 10:45:11: 28000000 INFO @ Tue, 14 Jul 2020 10:45:12: 23000000 INFO @ Tue, 14 Jul 2020 10:45:15: 17000000 INFO @ Tue, 14 Jul 2020 10:45:17: 24000000 INFO @ Tue, 14 Jul 2020 10:45:17: 29000000 INFO @ Tue, 14 Jul 2020 10:45:21: 18000000 INFO @ Tue, 14 Jul 2020 10:45:22: 25000000 INFO @ Tue, 14 Jul 2020 10:45:23: 30000000 INFO @ Tue, 14 Jul 2020 10:45:27: 19000000 INFO @ Tue, 14 Jul 2020 10:45:28: 26000000 INFO @ Tue, 14 Jul 2020 10:45:29: 31000000 INFO @ Tue, 14 Jul 2020 10:45:33: 20000000 INFO @ Tue, 14 Jul 2020 10:45:34: 27000000 INFO @ Tue, 14 Jul 2020 10:45:35: 32000000 INFO @ Tue, 14 Jul 2020 10:45:39: 21000000 INFO @ Tue, 14 Jul 2020 10:45:39: 28000000 INFO @ Tue, 14 Jul 2020 10:45:41: 33000000 INFO @ Tue, 14 Jul 2020 10:45:45: 22000000 INFO @ Tue, 14 Jul 2020 10:45:45: 29000000 INFO @ Tue, 14 Jul 2020 10:45:47: 34000000 INFO @ Tue, 14 Jul 2020 10:45:51: 23000000 INFO @ Tue, 14 Jul 2020 10:45:52: 30000000 INFO @ Tue, 14 Jul 2020 10:45:52: 35000000 INFO @ Tue, 14 Jul 2020 10:45:56: 24000000 INFO @ Tue, 14 Jul 2020 10:45:58: 31000000 INFO @ Tue, 14 Jul 2020 10:45:58: 36000000 INFO @ Tue, 14 Jul 2020 10:46:01: 25000000 INFO @ Tue, 14 Jul 2020 10:46:04: 32000000 INFO @ Tue, 14 Jul 2020 10:46:04: 37000000 INFO @ Tue, 14 Jul 2020 10:46:07: 26000000 INFO @ Tue, 14 Jul 2020 10:46:10: 33000000 INFO @ Tue, 14 Jul 2020 10:46:10: 38000000 INFO @ Tue, 14 Jul 2020 10:46:13: 27000000 INFO @ Tue, 14 Jul 2020 10:46:16: 34000000 INFO @ Tue, 14 Jul 2020 10:46:16: 39000000 INFO @ Tue, 14 Jul 2020 10:46:18: 28000000 INFO @ Tue, 14 Jul 2020 10:46:22: 35000000 INFO @ Tue, 14 Jul 2020 10:46:22: 40000000 INFO @ Tue, 14 Jul 2020 10:46:24: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 10:46:24: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 10:46:24: #1 total tags in treatment: 17710724 INFO @ Tue, 14 Jul 2020 10:46:24: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:46:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 10:46:24: #1 tags after filtering in treatment: 15201968 INFO @ Tue, 14 Jul 2020 10:46:24: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 14 Jul 2020 10:46:24: #1 finished! INFO @ Tue, 14 Jul 2020 10:46:24: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:46:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:46:24: 29000000 INFO @ Tue, 14 Jul 2020 10:46:25: #2 number of paired peaks: 28 WARNING @ Tue, 14 Jul 2020 10:46:25: Too few paired peaks (28) 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, 14 Jul 2020 10:46:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.05_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/SRX7988222/SRX7988222.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 10:46:28: 36000000 INFO @ Tue, 14 Jul 2020 10:46:30: 30000000 INFO @ Tue, 14 Jul 2020 10:46:34: 37000000 INFO @ Tue, 14 Jul 2020 10:46:36: 31000000 INFO @ Tue, 14 Jul 2020 10:46:40: 38000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 10:46:42: 32000000 INFO @ Tue, 14 Jul 2020 10:46:46: 39000000 INFO @ Tue, 14 Jul 2020 10:46:48: 33000000 INFO @ Tue, 14 Jul 2020 10:46:52: 40000000 INFO @ Tue, 14 Jul 2020 10:46:54: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 10:46:54: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 10:46:54: #1 total tags in treatment: 17710724 INFO @ Tue, 14 Jul 2020 10:46:54: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:46:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 10:46:54: 34000000 INFO @ Tue, 14 Jul 2020 10:46:54: #1 tags after filtering in treatment: 15201968 INFO @ Tue, 14 Jul 2020 10:46:54: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 14 Jul 2020 10:46:54: #1 finished! INFO @ Tue, 14 Jul 2020 10:46:54: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:46:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:46:55: #2 number of paired peaks: 28 WARNING @ Tue, 14 Jul 2020 10:46:55: Too few paired peaks (28) 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, 14 Jul 2020 10:46:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.10_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/SRX7988222/SRX7988222.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 10:46:59: 35000000 INFO @ Tue, 14 Jul 2020 10:47:05: 36000000 INFO @ Tue, 14 Jul 2020 10:47:11: 37000000 INFO @ Tue, 14 Jul 2020 10:47:17: 38000000 INFO @ Tue, 14 Jul 2020 10:47:23: 39000000 INFO @ Tue, 14 Jul 2020 10:47:29: 40000000 INFO @ Tue, 14 Jul 2020 10:47:30: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 10:47:30: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 10:47:30: #1 total tags in treatment: 17710724 INFO @ Tue, 14 Jul 2020 10:47:30: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 10:47:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 10:47:31: #1 tags after filtering in treatment: 15201968 INFO @ Tue, 14 Jul 2020 10:47:31: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 14 Jul 2020 10:47:31: #1 finished! INFO @ Tue, 14 Jul 2020 10:47:31: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 10:47:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 10:47:32: #2 number of paired peaks: 28 WARNING @ Tue, 14 Jul 2020 10:47:32: Too few paired peaks (28) 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, 14 Jul 2020 10:47:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.20_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/SRX7988222/SRX7988222.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7988222/SRX7988222.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。