2021-06-10 04:30:55 [INFO] Starting.
2021-06-10 04:30:55 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/
2021-06-10 04:30:55 [INFO] Creating new aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/aggregate.hdf5
2021-06-10 04:30:55 [INFO] Using chromosome sizes at /grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes
2021-06-10 04:30:55 [INFO] Using only main chromosomes: chr1, chr2, chr3, chr4, chr5, chr6, chr7, chrX, chr8, chr9, chr11, chr10, chr12, chr13, chr14, chr15, chr16, chr17, chr18, chr20, chr19, chrY, chr22, chr21, chrM
2021-06-10 04:30:56 [INFO] Building aggregate.
2021-06-10 04:30:56 [INFO] Writing every 10 Runs.
2021-06-10 04:30:56 [INFO] Processing SRX8330450. (1/2)
2021-06-10 04:30:56 [INFO] Processing SRX8330450-SRR11777584. (1/2)
2021-06-10 04:31:11 [INFO] Processing SRX8330451. (2/2)
2021-06-10 04:31:11 [INFO] Processing SRX8330451-SRR11777583. (2/2)
2021-06-10 04:31:33 [INFO] Writing to disk...
2021-06-10 04:31:36 [INFO] Finished.
2021-08-02 17:08:56 [INFO] Starting.
2021-08-02 17:08:56 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/
2021-08-02 17:08:56 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/aggregate.hdf5
2021-08-02 17:08:56 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-02 17:08:57 [INFO] Building aggregate for 1bp_raw network.
2021-08-02 17:08:57 [INFO] Writing every 10 Runs.
2021-08-02 17:08:57 [INFO] Processing SRX8330450. (1/2)
2021-08-02 17:08:57 [INFO] Processing SRX8330450-SRR11777584. (1/2)
2021-08-02 17:16:40 [INFO] Processing SRX8330451. (2/2)
2021-08-02 17:16:40 [INFO] Processing SRX8330451-SRR11777583. (2/2)
2021-08-02 17:20:07 [ERROR] Adding SRR11777583:chr4_vs_chrY to in memory aggregate failed. Error message:
Traceback (most recent call last):
  File "/grid/gillis/data/nfox/hi_c_data_processing/software/aggregate.py", line 428, in add_dataset
    aggregate_data[c] = aggregate_data[c] + net
  File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/scipy/sparse/base.py", line 415, in __add__
    return self._add_sparse(other)
  File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/scipy/sparse/compressed.py", line 359, in _add_sparse
    return self._binopt(other, '_plus_')
  File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/scipy/sparse/compressed.py", line 1226, in _binopt
    indptr = np.empty(self.indptr.shape, dtype=idx_dtype)
MemoryError: Unable to allocate 726. MiB for an array with shape (190214556,) and data type int32

2021-08-04 22:19:09 [INFO] Starting.
2021-08-04 22:19:09 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/
2021-08-04 22:19:09 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/aggregate.hdf5
2021-08-04 22:19:09 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-04 22:19:10 [INFO] Building aggregate for 1bp_raw network.
2021-08-04 22:19:10 [INFO] Writing every 10 Runs.
2021-08-04 22:19:10 [INFO] Processing SRX8330450. (1/2)
2021-08-04 22:19:10 [INFO] Processing SRX8330450-SRR11777584. (1/2)
2021-08-04 22:22:30 [INFO] Processing SRX8330451. (2/2)
2021-08-04 22:22:30 [INFO] Processing SRX8330451-SRR11777583. (2/2)
2021-08-04 22:31:20 [INFO] Writing to disk...
2021-08-04 22:32:14 [INFO] Finished.
2021-08-12 14:35:01 [INFO] Starting.
2021-08-12 14:35:01 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/
2021-08-12 14:35:01 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/aggregate.hdf5
2021-08-12 14:35:01 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 14:35:02 [INFO] Building aggregate for 40kbp_raw network.
2021-08-12 14:35:02 [INFO] Writing every 10 Runs.
2021-08-12 14:35:02 [INFO] Processing SRX8330450. (1/2)
2021-08-12 14:35:02 [INFO] Processing SRX8330450-SRR11777584. (1/2)
2021-08-12 14:35:24 [INFO] Processing SRX8330451. (2/2)
2021-08-12 14:35:24 [INFO] Processing SRX8330451-SRR11777583. (2/2)
2021-08-12 14:35:39 [INFO] Writing to disk...
2021-08-12 14:35:42 [INFO] Finished.
2021-08-12 15:13:20 [INFO] Starting.
2021-08-12 15:13:20 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/
2021-08-12 15:13:20 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/aggregate.hdf5
2021-08-12 15:13:20 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 15:13:21 [INFO] Building aggregate for 25kbp_raw network.
2021-08-12 15:13:21 [INFO] Writing every 10 Runs.
2021-08-12 15:13:21 [INFO] Processing SRX8330450. (1/2)
2021-08-12 15:13:21 [INFO] Processing SRX8330450-SRR11777584. (1/2)
2021-08-12 15:13:41 [INFO] Processing SRX8330451. (2/2)
2021-08-12 15:13:41 [INFO] Processing SRX8330451-SRR11777583. (2/2)
2021-08-12 15:13:55 [INFO] Writing to disk...
2021-08-12 15:13:57 [INFO] Finished.
2021-08-12 15:48:26 [INFO] Starting.
2021-08-12 15:48:26 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/
2021-08-12 15:48:26 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/aggregate.hdf5
2021-08-12 15:48:26 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 15:48:27 [INFO] Building aggregate for 5kbp_raw network.
2021-08-12 15:48:27 [INFO] Writing every 10 Runs.
2021-08-12 15:48:27 [INFO] Processing SRX8330450. (1/2)
2021-08-12 15:48:27 [INFO] Processing SRX8330450-SRR11777584. (1/2)
2021-08-12 15:48:49 [INFO] Processing SRX8330451. (2/2)
2021-08-12 15:48:49 [INFO] Processing SRX8330451-SRR11777583. (2/2)
2021-08-12 15:49:03 [INFO] Writing to disk...
2021-08-12 15:49:06 [INFO] Finished.
2021-08-12 16:37:21 [INFO] Starting.
2021-08-12 16:37:21 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/
2021-08-12 16:37:21 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/aggregate.hdf5
2021-08-12 16:37:21 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 16:37:22 [INFO] Building aggregate for 1kbp_raw network.
2021-08-12 16:37:22 [INFO] Writing every 10 Runs.
2021-08-12 16:37:22 [INFO] Processing SRX8330450. (1/2)
2021-08-12 16:37:22 [INFO] Processing SRX8330450-SRR11777584. (1/2)
2021-08-12 16:37:49 [INFO] Processing SRX8330451. (2/2)
2021-08-12 16:37:49 [INFO] Processing SRX8330451-SRR11777583. (2/2)
2021-08-12 16:38:10 [INFO] Writing to disk...
2021-08-12 16:38:15 [INFO] Finished.
2021-08-20 18:05:38 [INFO] Starting.
2021-08-20 18:05:38 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/
2021-08-20 18:05:38 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/aggregate.hdf5
2021-08-20 18:05:38 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-20 18:05:39 [INFO] Building aggregate for 100kbp_raw network.
2021-08-20 18:05:39 [INFO] Writing every 10 Runs.
2021-08-20 18:05:39 [INFO] Processing SRX8330450. (1/2)
2021-08-20 18:05:39 [INFO] Processing SRX8330450-SRR11777584. (1/2)
2021-08-20 18:05:51 [INFO] Processing SRX8330451. (2/2)
2021-08-20 18:05:51 [INFO] Processing SRX8330451-SRR11777583. (2/2)
2021-08-20 18:06:02 [INFO] Writing to disk...
2021-08-20 18:06:04 [INFO] Finished.
2021-08-23 11:31:45 [INFO] Starting.
2021-08-23 11:31:45 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/
2021-08-23 11:31:45 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/aggregate.hdf5
2021-08-23 11:31:45 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-23 11:31:46 [INFO] Building aggregate for 250kbp_raw network.
2021-08-23 11:31:46 [INFO] Writing every 10 Runs.
2021-08-23 11:31:46 [INFO] Processing SRX8330450. (1/2)
2021-08-23 11:31:46 [INFO] Processing SRX8330450-SRR11777584. (1/2)
2021-08-23 11:31:56 [INFO] Processing SRX8330451. (2/2)
2021-08-23 11:31:56 [INFO] Processing SRX8330451-SRR11777583. (2/2)
2021-08-23 11:32:04 [INFO] Writing to disk...
2021-08-23 11:32:05 [INFO] Finished.
2021-08-23 13:17:34 [INFO] Starting.
2021-08-23 13:17:34 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/
2021-08-23 13:17:34 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP098826/aggregate.hdf5
2021-08-23 13:17:34 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-23 13:17:35 [INFO] Building aggregate for 500kbp_raw network.
2021-08-23 13:17:35 [INFO] Writing every 10 Runs.
2021-08-23 13:17:35 [INFO] Processing SRX8330450. (1/2)
2021-08-23 13:17:35 [INFO] Processing SRX8330450-SRR11777584. (1/2)
2021-08-23 13:17:42 [INFO] Processing SRX8330451. (2/2)
2021-08-23 13:17:42 [INFO] Processing SRX8330451-SRR11777583. (2/2)
2021-08-23 13:17:46 [INFO] Writing to disk...
2021-08-23 13:17:47 [INFO] Finished.