Job ID = 6527440 SRX = ERX2075304 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T12:19:56 prefetch.2.10.7: 1) Downloading 'ERR2015722'... 2020-06-29T12:19:56 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:26:27 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:26:27 prefetch.2.10.7: 1) 'ERR2015722' was downloaded successfully Read 30250524 spots for ERR2015722/ERR2015722.sra Written 30250524 spots for ERR2015722/ERR2015722.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: 01:02:52 30250524 reads; of these: 30250524 (100.00%) were paired; of these: 2141679 (7.08%) aligned concordantly 0 times 21195983 (70.07%) aligned concordantly exactly 1 time 6912862 (22.85%) aligned concordantly >1 times ---- 2141679 pairs aligned concordantly 0 times; of these: 456320 (21.31%) aligned discordantly 1 time ---- 1685359 pairs aligned 0 times concordantly or discordantly; of these: 3370718 mates make up the pairs; of these: 2011878 (59.69%) aligned 0 times 799140 (23.71%) aligned exactly 1 time 559700 (16.60%) aligned >1 times 96.67% overall alignment rate Time searching: 01:02:52 Overall time: 01:02:52 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] 1423618 / 28274591 = 0.0503 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 @ Mon, 29 Jun 2020 23:02:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.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 @ Mon, 29 Jun 2020 23:02:07: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:02:07: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:02:12: 1000000 INFO @ Mon, 29 Jun 2020 23:02:18: 2000000 INFO @ Mon, 29 Jun 2020 23:02:23: 3000000 INFO @ Mon, 29 Jun 2020 23:02:29: 4000000 INFO @ Mon, 29 Jun 2020 23:02:35: 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 @ Mon, 29 Jun 2020 23:02:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.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 @ Mon, 29 Jun 2020 23:02:37: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:02:37: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:02:40: 6000000 INFO @ Mon, 29 Jun 2020 23:02:42: 1000000 INFO @ Mon, 29 Jun 2020 23:02:46: 7000000 INFO @ Mon, 29 Jun 2020 23:02:46: 2000000 INFO @ Mon, 29 Jun 2020 23:02:51: 3000000 INFO @ Mon, 29 Jun 2020 23:02:52: 8000000 INFO @ Mon, 29 Jun 2020 23:02:56: 4000000 INFO @ Mon, 29 Jun 2020 23:02:58: 9000000 INFO @ Mon, 29 Jun 2020 23:03:00: 5000000 INFO @ Mon, 29 Jun 2020 23:03:03: 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 @ Mon, 29 Jun 2020 23:03:05: 6000000 INFO @ Mon, 29 Jun 2020 23:03:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.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 @ Mon, 29 Jun 2020 23:03:07: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:03:07: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:03:09: 11000000 INFO @ Mon, 29 Jun 2020 23:03:10: 7000000 INFO @ Mon, 29 Jun 2020 23:03:12: 1000000 INFO @ Mon, 29 Jun 2020 23:03:14: 8000000 INFO @ Mon, 29 Jun 2020 23:03:14: 12000000 INFO @ Mon, 29 Jun 2020 23:03:18: 2000000 INFO @ Mon, 29 Jun 2020 23:03:19: 9000000 INFO @ Mon, 29 Jun 2020 23:03:20: 13000000 INFO @ Mon, 29 Jun 2020 23:03:23: 3000000 INFO @ Mon, 29 Jun 2020 23:03:24: 10000000 INFO @ Mon, 29 Jun 2020 23:03:26: 14000000 INFO @ Mon, 29 Jun 2020 23:03:28: 11000000 INFO @ Mon, 29 Jun 2020 23:03:29: 4000000 INFO @ Mon, 29 Jun 2020 23:03:31: 15000000 INFO @ Mon, 29 Jun 2020 23:03:33: 12000000 INFO @ Mon, 29 Jun 2020 23:03:34: 5000000 INFO @ Mon, 29 Jun 2020 23:03:37: 16000000 INFO @ Mon, 29 Jun 2020 23:03:38: 13000000 INFO @ Mon, 29 Jun 2020 23:03:40: 6000000 INFO @ Mon, 29 Jun 2020 23:03:43: 14000000 INFO @ Mon, 29 Jun 2020 23:03:43: 17000000 INFO @ Mon, 29 Jun 2020 23:03:45: 7000000 INFO @ Mon, 29 Jun 2020 23:03:47: 15000000 INFO @ Mon, 29 Jun 2020 23:03:49: 18000000 INFO @ Mon, 29 Jun 2020 23:03:51: 8000000 INFO @ Mon, 29 Jun 2020 23:03:52: 16000000 INFO @ Mon, 29 Jun 2020 23:03:55: 19000000 INFO @ Mon, 29 Jun 2020 23:03:57: 9000000 INFO @ Mon, 29 Jun 2020 23:03:57: 17000000 INFO @ Mon, 29 Jun 2020 23:04:00: 20000000 INFO @ Mon, 29 Jun 2020 23:04:01: 18000000 INFO @ Mon, 29 Jun 2020 23:04:02: 10000000 INFO @ Mon, 29 Jun 2020 23:04:06: 21000000 INFO @ Mon, 29 Jun 2020 23:04:06: 19000000 INFO @ Mon, 29 Jun 2020 23:04:07: 11000000 INFO @ Mon, 29 Jun 2020 23:04:11: 20000000 INFO @ Mon, 29 Jun 2020 23:04:11: 22000000 INFO @ Mon, 29 Jun 2020 23:04:13: 12000000 INFO @ Mon, 29 Jun 2020 23:04:16: 21000000 INFO @ Mon, 29 Jun 2020 23:04:17: 23000000 INFO @ Mon, 29 Jun 2020 23:04:19: 13000000 INFO @ Mon, 29 Jun 2020 23:04:20: 22000000 INFO @ Mon, 29 Jun 2020 23:04:23: 24000000 INFO @ Mon, 29 Jun 2020 23:04:24: 14000000 INFO @ Mon, 29 Jun 2020 23:04:25: 23000000 INFO @ Mon, 29 Jun 2020 23:04:28: 15000000 INFO @ Mon, 29 Jun 2020 23:04:29: 25000000 INFO @ Mon, 29 Jun 2020 23:04:30: 24000000 INFO @ Mon, 29 Jun 2020 23:04:33: 16000000 INFO @ Mon, 29 Jun 2020 23:04:34: 25000000 INFO @ Mon, 29 Jun 2020 23:04:34: 26000000 INFO @ Mon, 29 Jun 2020 23:04:38: 17000000 INFO @ Mon, 29 Jun 2020 23:04:39: 26000000 INFO @ Mon, 29 Jun 2020 23:04:40: 27000000 INFO @ Mon, 29 Jun 2020 23:04:42: 18000000 INFO @ Mon, 29 Jun 2020 23:04:44: 27000000 INFO @ Mon, 29 Jun 2020 23:04:46: 28000000 INFO @ Mon, 29 Jun 2020 23:04:47: 19000000 INFO @ Mon, 29 Jun 2020 23:04:48: 28000000 INFO @ Mon, 29 Jun 2020 23:04:51: 29000000 INFO @ Mon, 29 Jun 2020 23:04:52: 20000000 INFO @ Mon, 29 Jun 2020 23:04:53: 29000000 INFO @ Mon, 29 Jun 2020 23:04:57: 21000000 INFO @ Mon, 29 Jun 2020 23:04:57: 30000000 INFO @ Mon, 29 Jun 2020 23:04:58: 30000000 INFO @ Mon, 29 Jun 2020 23:05:01: 22000000 INFO @ Mon, 29 Jun 2020 23:05:03: 31000000 INFO @ Mon, 29 Jun 2020 23:05:04: 31000000 INFO @ Mon, 29 Jun 2020 23:05:06: 23000000 INFO @ Mon, 29 Jun 2020 23:05:08: 32000000 INFO @ Mon, 29 Jun 2020 23:05:09: 32000000 INFO @ Mon, 29 Jun 2020 23:05:11: 24000000 INFO @ Mon, 29 Jun 2020 23:05:14: 33000000 INFO @ Mon, 29 Jun 2020 23:05:15: 33000000 INFO @ Mon, 29 Jun 2020 23:05:15: 25000000 INFO @ Mon, 29 Jun 2020 23:05:20: 26000000 INFO @ Mon, 29 Jun 2020 23:05:20: 34000000 INFO @ Mon, 29 Jun 2020 23:05:21: 34000000 INFO @ Mon, 29 Jun 2020 23:05:25: 27000000 INFO @ Mon, 29 Jun 2020 23:05:26: 35000000 INFO @ Mon, 29 Jun 2020 23:05:27: 35000000 INFO @ Mon, 29 Jun 2020 23:05:29: 28000000 INFO @ Mon, 29 Jun 2020 23:05:32: 36000000 INFO @ Mon, 29 Jun 2020 23:05:32: 36000000 INFO @ Mon, 29 Jun 2020 23:05:34: 29000000 INFO @ Mon, 29 Jun 2020 23:05:37: 37000000 INFO @ Mon, 29 Jun 2020 23:05:38: 37000000 INFO @ Mon, 29 Jun 2020 23:05:39: 30000000 INFO @ Mon, 29 Jun 2020 23:05:43: 38000000 INFO @ Mon, 29 Jun 2020 23:05:43: 31000000 INFO @ Mon, 29 Jun 2020 23:05:44: 38000000 INFO @ Mon, 29 Jun 2020 23:05:48: 32000000 INFO @ Mon, 29 Jun 2020 23:05:49: 39000000 INFO @ Mon, 29 Jun 2020 23:05:50: 39000000 INFO @ Mon, 29 Jun 2020 23:05:53: 33000000 INFO @ Mon, 29 Jun 2020 23:05:55: 40000000 INFO @ Mon, 29 Jun 2020 23:05:55: 40000000 INFO @ Mon, 29 Jun 2020 23:05:57: 34000000 INFO @ Mon, 29 Jun 2020 23:06:01: 41000000 INFO @ Mon, 29 Jun 2020 23:06:01: 41000000 INFO @ Mon, 29 Jun 2020 23:06:02: 35000000 INFO @ Mon, 29 Jun 2020 23:06:07: 36000000 INFO @ Mon, 29 Jun 2020 23:06:07: 42000000 INFO @ Mon, 29 Jun 2020 23:06:07: 42000000 INFO @ Mon, 29 Jun 2020 23:06:11: 37000000 INFO @ Mon, 29 Jun 2020 23:06:13: 43000000 INFO @ Mon, 29 Jun 2020 23:06:13: 43000000 INFO @ Mon, 29 Jun 2020 23:06:16: 38000000 INFO @ Mon, 29 Jun 2020 23:06:18: 44000000 INFO @ Mon, 29 Jun 2020 23:06:19: 44000000 INFO @ Mon, 29 Jun 2020 23:06:21: 39000000 INFO @ Mon, 29 Jun 2020 23:06:24: 45000000 INFO @ Mon, 29 Jun 2020 23:06:25: 45000000 INFO @ Mon, 29 Jun 2020 23:06:25: 40000000 INFO @ Mon, 29 Jun 2020 23:06:30: 41000000 INFO @ Mon, 29 Jun 2020 23:06:30: 46000000 INFO @ Mon, 29 Jun 2020 23:06:31: 46000000 INFO @ Mon, 29 Jun 2020 23:06:35: 42000000 INFO @ Mon, 29 Jun 2020 23:06:36: 47000000 INFO @ Mon, 29 Jun 2020 23:06:37: 47000000 INFO @ Mon, 29 Jun 2020 23:06:40: 43000000 INFO @ Mon, 29 Jun 2020 23:06:42: 48000000 INFO @ Mon, 29 Jun 2020 23:06:43: 48000000 INFO @ Mon, 29 Jun 2020 23:06:44: 44000000 INFO @ Mon, 29 Jun 2020 23:06:48: 49000000 INFO @ Mon, 29 Jun 2020 23:06:49: 49000000 INFO @ Mon, 29 Jun 2020 23:06:49: 45000000 INFO @ Mon, 29 Jun 2020 23:06:54: 50000000 INFO @ Mon, 29 Jun 2020 23:06:54: 46000000 INFO @ Mon, 29 Jun 2020 23:06:54: 50000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:06:59: 47000000 INFO @ Mon, 29 Jun 2020 23:07:00: 51000000 INFO @ Mon, 29 Jun 2020 23:07:00: 51000000 INFO @ Mon, 29 Jun 2020 23:07:04: 48000000 INFO @ Mon, 29 Jun 2020 23:07:05: 52000000 INFO @ Mon, 29 Jun 2020 23:07:06: 52000000 INFO @ Mon, 29 Jun 2020 23:07:08: 49000000 INFO @ Mon, 29 Jun 2020 23:07:11: 53000000 INFO @ Mon, 29 Jun 2020 23:07:11: 53000000 INFO @ Mon, 29 Jun 2020 23:07:13: 50000000 INFO @ Mon, 29 Jun 2020 23:07:16: 54000000 INFO @ Mon, 29 Jun 2020 23:07:16: 54000000 INFO @ Mon, 29 Jun 2020 23:07:18: 51000000 INFO @ Mon, 29 Jun 2020 23:07:21: 55000000 INFO @ Mon, 29 Jun 2020 23:07:22: 55000000 INFO @ Mon, 29 Jun 2020 23:07:23: 52000000 INFO @ Mon, 29 Jun 2020 23:07:25: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 23:07:25: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 23:07:25: #1 total tags in treatment: 26691719 INFO @ Mon, 29 Jun 2020 23:07:25: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:07:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:07:26: #1 tags after filtering in treatment: 24785474 INFO @ Mon, 29 Jun 2020 23:07:26: #1 Redundant rate of treatment: 0.07 INFO @ Mon, 29 Jun 2020 23:07:26: #1 finished! INFO @ Mon, 29 Jun 2020 23:07:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:07:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:07:26: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 23:07:26: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 23:07:26: #1 total tags in treatment: 26691719 INFO @ Mon, 29 Jun 2020 23:07:26: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:07:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:07:26: #1 tags after filtering in treatment: 24785474 INFO @ Mon, 29 Jun 2020 23:07:26: #1 Redundant rate of treatment: 0.07 INFO @ Mon, 29 Jun 2020 23:07:26: #1 finished! INFO @ Mon, 29 Jun 2020 23:07:26: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:07:26: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:07:27: #2 number of paired peaks: 50 WARNING @ Mon, 29 Jun 2020 23:07:27: Too few paired peaks (50) 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 @ Mon, 29 Jun 2020 23:07:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.05_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/ERX2075304/ERX2075304.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:07:27: 53000000 INFO @ Mon, 29 Jun 2020 23:07:28: #2 number of paired peaks: 50 WARNING @ Mon, 29 Jun 2020 23:07:28: Too few paired peaks (50) 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 @ Mon, 29 Jun 2020 23:07:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.10_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/ERX2075304/ERX2075304.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:07:32: 54000000 INFO @ Mon, 29 Jun 2020 23:07:36: 55000000 INFO @ Mon, 29 Jun 2020 23:07:40: #1 tag size is determined as 75 bps INFO @ Mon, 29 Jun 2020 23:07:40: #1 tag size = 75 INFO @ Mon, 29 Jun 2020 23:07:40: #1 total tags in treatment: 26691719 INFO @ Mon, 29 Jun 2020 23:07:40: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:07:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:07:40: #1 tags after filtering in treatment: 24785474 INFO @ Mon, 29 Jun 2020 23:07:40: #1 Redundant rate of treatment: 0.07 INFO @ Mon, 29 Jun 2020 23:07:40: #1 finished! INFO @ Mon, 29 Jun 2020 23:07:40: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:07:40: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:07:41: #2 number of paired peaks: 50 WARNING @ Mon, 29 Jun 2020 23:07:41: Too few paired peaks (50) 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 @ Mon, 29 Jun 2020 23:07:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.20_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/ERX2075304/ERX2075304.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/ERX2075304/ERX2075304.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。