sha256 stringlengths 64 64 | language stringclasses 27
values | size int32 1 491k | lines int32 1 21.8k | content stringlengths 1 200k |
|---|---|---|---|---|
a19b376ecd48bac698c0eaf5b326d5d4ddf917a9f86681d355120941ca787ba9 | Shell | 594 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP195_PD_NP22-55_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP195_PD_NP22-55_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP195_PD_NP22-55_AMY_bulkAligned.sortedByCoord.out.bam.err
# convert to bi... |
a3c55b4fad00f692e7a866e84235d13f7a32238a7c03f3a7593e5c713c423077 | Shell | 594 | 15 | #!/bin/bash
#SBATCH -n 20
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP227_PD_NP17-232_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP227_PD_NP17-232_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP227_PD_NP17-232_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
cbf470302b12771bd7eaa4da6679eadef3afc57809f90d08efc9818f5a0b4fce | Shell | 594 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP228_PD_NP19-91_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP228_PD_NP19-91_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP228_PD_NP19-91_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert to bi... |
daa75a6cdb77089396311e434716101ecb554ae78fdfda43d93b5169f668603c | Shell | 594 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP211_PD_NP19-137_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP211_PD_NP19-137_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP211_PD_NP19-137_SN_bulkAligned.sortedByCoord.out.bam.err
# convert to bi... |
db825ae4e69c380d8d30401d2bbe1a5b5ca9c8fc16128b0d45025d72effdb3ce | Shell | 594 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP209_PD_NP17-232_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP209_PD_NP17-232_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP209_PD_NP17-232_SN_bulkAligned.sortedByCoord.out.bam.err
# convert to bi... |
dfc5771951cf9e364f5408cd90ba289790a3f620a6c281ee7e989cab6ce273e9 | Shell | 594 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP196_PD_NP16-285_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP196_PD_NP16-285_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP196_PD_NP16-285_AMY_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
e41e88f7f21d12a9775e85c9171911a8c1ba830b3c27de1a969c73a4be204ca0 | Shell | 594 | 15 | #!/bin/bash
#SBATCH -n 20
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP226_PD_NP16-285_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP226_PD_NP16-285_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP226_PD_NP16-285_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
f99d4e9271b3670d89089c9111ec4ff17faf193d4e54ae4aeebe2725f4a143cc | Shell | 594 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP156_PD_NP21-57_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP156_PD_NP21-57_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP156_PD_NP21-57_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert to bi... |
fbee641ac6f9a1b07fc0d823fff5dfaea23921423527ce75b171328347280848 | Shell | 594 | 15 | #!/bin/bash
#SBATCH -n 20
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP220_PD_NP19-137_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP220_PD_NP19-137_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP220_PD_NP19-137_PUT_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
ff58e215a6667ee0c4862182a536d1ff662fdf982940d2fef5334e184a9d97bf | Shell | 594 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP202_PD_NP19-137_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP202_PD_NP19-137_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP202_PD_NP19-137_AMY_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
571f98f140a02aec7e1d7818714074924f7697cd12da0b6a10e7a1f3df970230 | Shell | 595 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP204_PD_NP21-04_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP204_PD_NP21-04_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP204_PD_NP21-04_AMY_bulkAligned.sortedByCoord.out.bam.err
# convert to b... |
cbf401ef58701e3e95b1af405a22c1dc1d475c9e20ea1634058998ee92ebd945 | Shell | 595 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP159_ctrl_16-119_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP159_ctrl_16-119_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP159_ctrl_16-119_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert t... |
eceacacbd4adc81fb66b4d2de3e312f942eec764177c9c3cd76b4f3afaa0c6a3 | Shell | 595 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP179_PD_NP21-217_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP179_PD_NP21-217_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP179_PD_NP21-217_SN_bulkAligned.sortedByCoord.out.bam.err
# convert to b... |
f6fa18f9939fe28d9f89def2c217f3f5325610ee395ec3c69aa0db996984bc5b | Shell | 595 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP178_PD_NP21-208_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP178_PD_NP21-208_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP178_PD_NP21-208_SN_bulkAligned.sortedByCoord.out.bam.err
# convert to b... |
0122fe91ba9d7fe863ec5e63836a68a1f29ba554a2e8bc1cc57281ec1f743dbd | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP206_ctrl_NP22-75_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP206_ctrl_NP22-75_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP206_ctrl_NP22-75_SN_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
05159f6013750324596140d3959bb1ea348779c9d9659d62e767ae60d70b7f96 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP180_ctrl_NP16-119_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP180_ctrl_NP16-119_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP180_ctrl_NP16-119_SN_bulkAligned.sortedByCoord.out.bam.err
# convert... |
059c88534fa1addcc343f7ce3e26895909e9edc8c14cf480325f6143f0aaf280 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP170_ctrl_NP17-20_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP170_ctrl_NP17-20_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP170_ctrl_NP17-20_PUT_bulkAligned.sortedByCoord.out.bam.err
# convert... |
0c8cdf575b3da146fe8163beecb78409c8e841cbbc50499084e73e841ac64414 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP224_ctrl_NP22-75_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP224_ctrl_NP22-75_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP224_ctrl_NP22-75_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert... |
1f41829b0521a4ac28e91c43ade8de4b02bd080a40fe123781f86ccc9d4091a8 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP157_PD_NP21-208_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP157_PD_NP21-208_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP157_PD_NP21-208_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
203ee4e4587980cbd573af6e3de4066ef6e6be11df4ac5d5c78b9040c1307e2d | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP201_ctrl_NP22-75_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP201_ctrl_NP22-75_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP201_ctrl_NP22-75_AMY_bulkAligned.sortedByCoord.out.bam.err
# convert... |
2e76531658edfb2fdbd3a826ed873d166896b8ea9edf518595c8782857a32c05 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 20
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP218_ctrl_NP22-37_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP218_ctrl_NP22-37_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP218_ctrl_NP22-37_PUT_bulkAligned.sortedByCoord.out.bam.err
# convert... |
36aa514b8fcbd9c3d7de8a9c26324bd7cd2b28d45bfc29d84d3865d643f716d3 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP196_PD_NP16-285_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP196_PD_NP16-285_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP196_PD_NP16-285_AMY_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
3b47d78c3b1e6086425f3ff834428b103d27a40956f7c94b71a9e4a886760064 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP215_PD_NP17-232_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP215_PD_NP17-232_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP215_PD_NP17-232_PUT_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
3f7ce60858dd03eef213c8f48859b93d6321fd2c25165e5236fac0a2a2857dc0 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP167_ctrl_NP17-20_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP167_ctrl_NP17-20_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP167_ctrl_NP17-20_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert... |
4145f6cfefca594e30a995f3340922669ef6e859deb43667e8ae9be040d5c763 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP214_PD_NP16-285_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP214_PD_NP16-285_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP214_PD_NP16-285_PUT_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
5600803fdf0d87282925e1cfcfba2f20415e4a6806594b79024413e45ffb712b | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 60:00:00
#SBATCH -J bw_ASAP230_ctrl_NP21-04_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP230_ctrl_NP21-04_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP230_ctrl_NP21-04_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert... |
7e2c010de102b7d14d4c6a8c8937461def1c29d995d52d744d31ebdc2496ebdb | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 60:00:00
#SBATCH -J bw_ASAP161_ctrl_NP18-46_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP161_ctrl_NP18-46_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP161_ctrl_NP18-46_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert... |
81faf2bfd52ab83d1756b70a871a57f09800809e5d8e39c2668a162286df5925 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP200_ctrl_NP22-37_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP200_ctrl_NP22-37_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP200_ctrl_NP22-37_AMY_bulkAligned.sortedByCoord.out.bam.err
# convert... |
82ad44df3eec3721f036791e5314b32f936e8cac168c4122627b0f266564a316 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP220_PD_NP19-137_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP220_PD_NP19-137_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP220_PD_NP19-137_PUT_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
870773978ef90e4fa2ebe62211f7be91f926738ee05dcf2ba205437b51a32c58 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP163_PD_NP21-208_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP163_PD_NP21-208_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP163_PD_NP21-208_PUT_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
a195965b768c5f5d9a67db283088163cd116a1a75af8ddc13549b9779d5a46f2 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP203_ctrl_NP19-218_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP203_ctrl_NP19-218_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP203_ctrl_NP19-218_SN_bulkAligned.sortedByCoord.out.bam.err
# convert... |
a4aa1b3d5b200d3a45a145ab89a976a2bff440f0672256557ea581e5f61de83f | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP164_PD_NP21-217_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP164_PD_NP21-217_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP164_PD_NP21-217_PUT_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
ac3c2c657d33ce1f0c7025f7f86b143fa20c43491d1b629fb267aff7657459a6 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP184_ctrl_NP18-148_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP184_ctrl_NP18-148_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP184_ctrl_NP18-148_SN_bulkAligned.sortedByCoord.out.bam.err
# convert... |
c4d26f89360cdaa8cadfe69964eed6e922ad49005251b030a046154055db6b86 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP227_PD_NP17-232_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP227_PD_NP17-232_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP227_PD_NP17-232_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
cb31969e843693829516b99206d29fa3fa6457955739491b07e960658546fb34 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 60:00:00
#SBATCH -J bw_ASAP231_ctrl_NP23-21_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP231_ctrl_NP23-21_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP231_ctrl_NP23-21_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert... |
ccb20bed085de664d64eaeda7948ad921ad45cf2a99b49cdd3ce2955025a28dc | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP181_ctrl_NP16-293_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP181_ctrl_NP16-293_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP181_ctrl_NP16-293_SN_bulkAligned.sortedByCoord.out.bam.err
# convert... |
d196a83776dd2de794081430558fabfdcb305dcf5d1d200b5a62d2aab1ca741a | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP226_PD_NP16-285_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP226_PD_NP16-285_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP226_PD_NP16-285_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
de4696e16d93240cffcc653d58af93607e8664dc7a431266682f19fbaee0b555 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP175_ctrl_NP16-284_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP175_ctrl_NP16-284_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP175_ctrl_NP16-284_SN_bulkAligned.sortedByCoord.out.bam.err
# convert... |
e5895ba4788fafbc0eb187686e54542af7ca0fbc0f323246780402b20a66d033 | Shell | 599 | 13 | # if specified in the config, the FreeSurfer environment is set up.
if [[ $setupFreesurfer -eq 1 ]]; then
export FREESURFER_HOME=$freesurferHome
source $FREESURFER_HOME/SetUpFreeSurfer.sh
fi
# SUBJECTS_DIR is the folder were all files of a particular subject are stored. Hence the subject itself is called 0_freesurfe... |
e67dc843069f394acd59bc7a0f229171d6aea0aee5d08151428679eff130cdea | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 20
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP219_ctrl_NP22-75_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP219_ctrl_NP22-75_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP219_ctrl_NP22-75_PUT_bulkAligned.sortedByCoord.out.bam.err
# convert... |
f5d1a695e0fa12a7694871ba7e3593252ab1dc8417d718635bfd848bbde421e1 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP158_PD_NP21-217_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP158_PD_NP21-217_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP158_PD_NP21-217_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert to... |
f9fd72c6380c81975333e42e5c01884606af46dc91ed828f8021668f2ef0d648 | Shell | 599 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP172_ctrl_NP18-46_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP172_ctrl_NP18-46_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP172_ctrl_NP18-46_PUT_bulkAligned.sortedByCoord.out.bam.err
# convert... |
0a3fde039b28ca1c22f2d0e5bad1595f50979dfa51afca73df2ce6873f12cf0e | Shell | 600 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 110:00:00
#SBATCH -J bw_ASAP159_ctrl_16-119_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP159_ctrl_16-119_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP159_ctrl_16-119_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert t... |
c276c16ac9306070e03f88ef1f81626196e298983279404e75ebd36cd163e196 | Shell | 600 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP191_PD_NP21-208_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP191_PD_NP21-208_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP191_PD_NP21-208_AMY_bulkAligned.sortedByCoord.out.bam.err
# convert t... |
d9a09470813c7f1358931d636911c1215e712e00970709f1ef87d910b0bf698c | Shell | 600 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP185_PD_NP21-217_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP185_PD_NP21-217_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP185_PD_NP21-217_AMY_bulkAligned.sortedByCoord.out.bam.err
# convert t... |
fdf0f8ba0f08d74ff5edaffec22f9eef15354374b179a85cd7d21ceca62977fb | Shell | 600 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP202_PD_NP19-137_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP202_PD_NP19-137_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP202_PD_NP19-137_AMY_bulkAligned.sortedByCoord.out.bam.err
# convert t... |
2566effbd6ca79d27bb791cbee4fc8a274b43e8cabe60c6a78d32790802f0ee8 | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 60:00:00
#SBATCH -J bw_ASAP221_ctrl_NP19-218_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP221_ctrl_NP19-218_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP221_ctrl_NP19-218_PFC_bulkAligned.sortedByCoord.out.bam.err
# conv... |
2d073f82b2a2f2c55920e04a0d839d58740581c2ed32aefc8bf138307ae16332 | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 60:00:00
#SBATCH -J bw_ASAP217_ctrl_NP19-218_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP217_ctrl_NP19-218_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP217_ctrl_NP19-218_PUT_bulkAligned.sortedByCoord.out.bam.err
# conv... |
3e2e25f59f044569c7efef425b6679a7d7efff0f06aae71b959532e9c8c1cdd1 | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP162_ctrl_NP18-148_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP162_ctrl_NP18-148_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP162_ctrl_NP18-148_PFC_bulkAligned.sortedByCoord.out.bam.err
# conv... |
5618800b29260e0e97711edd0d9048f0f9d9d77fe8ecc4666f4135cee5cfad6c | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP218_ctrl_NP22-37_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP218_ctrl_NP22-37_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP218_ctrl_NP22-37_PUT_bulkAligned.sortedByCoord.out.bam.err
# convert... |
5df793613826212ca31d246f44ded9a3d575e1d43b6209be516f347cc90baeb0 | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 20
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP229_ctrl_NP19-137_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP229_ctrl_NP19-137_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP229_ctrl_NP19-137_PFC_bulkAligned.sortedByCoord.out.bam.err
# conv... |
60bcf59546250539397c0affa3fbc74416a7d8664542bf5c37359682162447e8 | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP189_ctrl_NP18-148_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP189_ctrl_NP18-148_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP189_ctrl_NP18-148_AMY_bulkAligned.sortedByCoord.out.bam.err
# conv... |
68530083aaba53d2a19a7045681c5e0acb17f10766feb5e0cc14cded72b0830b | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP224_ctrl_NP22-75_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP224_ctrl_NP22-75_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP224_ctrl_NP22-75_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert... |
698713cf42a6b7e907579b466d8a41ea6c3f4c6bfe583365abe72fbb8deffc89 | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP174_ctrl_NP16-119_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP174_ctrl_NP16-119_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP174_ctrl_NP16-119_PUT_bulkAligned.sortedByCoord.out.bam.err
# conv... |
70af346551f5ab9c7b326b88416ce502d69f9de37b1eaf59f0ac36719e026757 | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP219_ctrl_NP22-75_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP219_ctrl_NP22-75_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP219_ctrl_NP22-75_PUT_bulkAligned.sortedByCoord.out.bam.err
# convert... |
73e47f967a56e95435af34701907e8898e13d39dbf11657bbbae814d2d6b48d0 | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP186_ctrl_NP16-119_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP186_ctrl_NP16-119_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP186_ctrl_NP16-119_AMY_bulkAligned.sortedByCoord.out.bam.err
# conv... |
75ecd30ff31beab9de8825cc6a04e5e20160d1ac1e55f4bd2e25cce50588ad64 | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP223_ctrl_NP22-37_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP223_ctrl_NP22-37_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP223_ctrl_NP22-37_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert... |
adda681849114d8ed91317797dfc43ecb49cea9f1df08e2cf46100f0c4164e77 | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP230_ctrl_NP21-04_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP230_ctrl_NP21-04_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP230_ctrl_NP21-04_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert... |
b3a44d087c9f5ed4e2dacfde5c578eb125571f6c1f3bb26fd0aa4a9c466487de | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP168_ctrl_NP16-284_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP168_ctrl_NP16-284_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP168_ctrl_NP16-284_PUT_bulkAligned.sortedByCoord.out.bam.err
# conv... |
b96a00e28ec6256b4d98afcaa74bbca279fe8599445e6da18b8c8f13a043cefa | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP176_ctrl_NP18-148_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP176_ctrl_NP18-148_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP176_ctrl_NP18-148_PUT_bulkAligned.sortedByCoord.out.bam.err
# conv... |
b9c371bc2e5f48bca2a6e8cdfc4661e0f335262fa874224e20da2477fc397e41 | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP188_ctrl_NP16-293_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP188_ctrl_NP16-293_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP188_ctrl_NP16-293_AMY_bulkAligned.sortedByCoord.out.bam.err
# conv... |
bd3f751103d3dd5aad47ef54a6a5be94a106de3ef68686ce25bf2bd3da389f00 | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP167_ctrl_NP17-20_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP167_ctrl_NP17-20_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP167_ctrl_NP17-20_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert... |
c0ab2f3f8e45badc642f3b42178a065690194aec2bd7bac5b4a8149817e5fb0f | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP175_ctrl_NP16-284_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP175_ctrl_NP16-284_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP175_ctrl_NP16-284_SN_bulkAligned.sortedByCoord.out.bam.err
# convert... |
c45fde68769e4fcc6ea9c5ae23aeffcd2b6eee6fe622b3c59d0c1d74813d189d | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP166_ctrl_NP16-293_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP166_ctrl_NP16-293_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP166_ctrl_NP16-293_PFC_bulkAligned.sortedByCoord.out.bam.err
# conv... |
db9956aef6ffbc162da950378691383c5794323d7699615c97e453ea2fb941db | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP199_ctrl_NP19-218_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP199_ctrl_NP19-218_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP199_ctrl_NP19-218_AMY_bulkAligned.sortedByCoord.out.bam.err
# conv... |
ec03d2112a811d60a4c25d51062900adf569201faddc6434555302872a949ebd | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP161_ctrl_NP18-46_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP161_ctrl_NP18-46_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP161_ctrl_NP18-46_PFC_bulkAligned.sortedByCoord.out.bam.err
# convert... |
ef65c5409b183a6ffa423a0c713df8bfe8a02b393bd4ab41183ff6056dd866bd | Shell | 604 | 15 | #!/bin/bash
#SBATCH -n 40
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP165_ctrl_NP16-284_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP165_ctrl_NP16-284_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP165_ctrl_NP16-284_PFC_bulkAligned.sortedByCoord.out.bam.err
# conv... |
01c6264e39c733eda0468ccbfa6867759b334cc139915c74507fcd3d474d2406 | Shell | 605 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP184_ctrl_NP18-148_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP184_ctrl_NP18-148_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP184_ctrl_NP18-148_SN_bulkAligned.sortedByCoord.out.bam.err
# conver... |
29dbbb3b73e2a2520b9e5b76fd7c734a6613593aa04563f36c29e4fa4bcae69d | Shell | 605 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP181_ctrl_NP16-293_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP181_ctrl_NP16-293_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP181_ctrl_NP16-293_SN_bulkAligned.sortedByCoord.out.bam.err
# conver... |
3cb0a6b55f5089eb8d3fade0066377906508e3f21fc21cabdeb78527017205c8 | Shell | 605 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP180_ctrl_NP16-119_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP180_ctrl_NP16-119_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP180_ctrl_NP16-119_SN_bulkAligned.sortedByCoord.out.bam.err
# conver... |
51b0ce4b6fe559aa068e86b10bb28f715d97621e5adb74170a781dd6104f1fe2 | Shell | 605 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP170_ctrl_NP17-20_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP170_ctrl_NP17-20_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP170_ctrl_NP17-20_PUT_bulkAligned.sortedByCoord.out.bam.err
# conver... |
68520ff781be0fc93bcc71ae976b05167f0f86e2cf037432daa2a718948766ec | Shell | 605 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP172_ctrl_NP18-46_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP172_ctrl_NP18-46_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP172_ctrl_NP18-46_PUT_bulkAligned.sortedByCoord.out.bam.err
# conver... |
9278af3cdeab558fe29bec6ef579679eb3e9d3e871494522b63ba8f9882dd0b8 | Shell | 605 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP200_ctrl_NP22-37_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP200_ctrl_NP22-37_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP200_ctrl_NP22-37_AMY_bulkAligned.sortedByCoord.out.bam.err
# conver... |
ad57714d9e959c87c42a917b3865d9d2a31094eb2905fb8c931758495fd8671b | Shell | 605 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP201_ctrl_NP22-75_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP201_ctrl_NP22-75_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP201_ctrl_NP22-75_AMY_bulkAligned.sortedByCoord.out.bam.err
# conver... |
c6f4b76239180c677f42bf316ee697e3127a50ccd86602f0f7777057199b7dc6 | Shell | 605 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP203_ctrl_NP19-218_SN_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP203_ctrl_NP19-218_SN_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP203_ctrl_NP19-218_SN_bulkAligned.sortedByCoord.out.bam.err
# conver... |
5c5d8e6cc26ecdc6ba9f6090dfe03f2d826903937ec05e7aaca216a464e5e3d9 | Shell | 607 | 20 | #!/usr/bin/env sh
# Regenerate requirements.lock for all supported platforms (Linux Docker, macOS, Windows).
# Requires Docker. Run from the repository root.
set -eu
ROOT="$(CDPATH= cd -- "$(dirname -- "$0")/.." && pwd)"
cd "$ROOT"
docker run --rm \
-v "$ROOT:/work" \
-w /work \
python:3.12.13-slim \
bash -c ... |
0c527f902459a938a6554bd262ebba68e5112e174bee93fdb22c4a1891a27093 | Shell | 609 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP165_ctrl_NP16-284_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP165_ctrl_NP16-284_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP165_ctrl_NP16-284_PFC_bulkAligned.sortedByCoord.out.bam.err
# conv... |
2f7905553162b5cbad1fc687057ff93b2f69f87a8224cbc46c7fa8863f44891b | Shell | 609 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP221_ctrl_NP19-218_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP221_ctrl_NP19-218_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP221_ctrl_NP19-218_PFC_bulkAligned.sortedByCoord.out.bam.err
# conv... |
3148e32cd9828b7d29c1920e64623df537e6d8799d46409d62917bc362df818a | Shell | 609 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP166_ctrl_NP16-293_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP166_ctrl_NP16-293_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP166_ctrl_NP16-293_PFC_bulkAligned.sortedByCoord.out.bam.err
# conv... |
32733f4c0bf585a7a89ba95cec63249461618f5012879febfd14263e37b5098d | Shell | 609 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP168_ctrl_NP16-284_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP168_ctrl_NP16-284_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP168_ctrl_NP16-284_PUT_bulkAligned.sortedByCoord.out.bam.err
# conv... |
4ff64d7fe415d4108c05fc1d4cc8ed86a92ec3c1f7b51cbda9bce5a7f85436fc | Shell | 609 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP174_ctrl_NP16-119_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP174_ctrl_NP16-119_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP174_ctrl_NP16-119_PUT_bulkAligned.sortedByCoord.out.bam.err
# conv... |
5d607a376a79a39f31f26cd38e69a745c97b9c7a0e92ecf695f24eb46bebe9a3 | Shell | 609 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP160_ctrl_NP17-216_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP160_ctrl_NP17-216_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP160_ctrl_NP17-216_PFC_bulkAligned.sortedByCoord.out.bam.err
# conv... |
a7f521ebdab1b749ced46462a458c9ebeefff4a5cda310eb783c14b8a2294eb6 | Shell | 609 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP199_ctrl_NP19-218_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP199_ctrl_NP19-218_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP199_ctrl_NP19-218_AMY_bulkAligned.sortedByCoord.out.bam.err
# conv... |
bbeede95cc363341d38a66a2783677c87ae6dc1868b9bbcf1f6c5789eae2c4fd | Shell | 609 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP217_ctrl_NP19-218_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP217_ctrl_NP19-218_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP217_ctrl_NP19-218_PUT_bulkAligned.sortedByCoord.out.bam.err
# conv... |
dad15bcf418b681190d1852d2bd24db8e748d102eed68c6a7e02aa178365965d | Shell | 609 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP229_ctrl_NP19-137_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP229_ctrl_NP19-137_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP229_ctrl_NP19-137_PFC_bulkAligned.sortedByCoord.out.bam.err
# conv... |
ff7a974383dfd8d44fe7a0e859c31c158f51c58cc391d0d6ed6d085359904118 | Shell | 609 | 15 | #!/bin/bash
#SBATCH -n 15
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP162_ctrl_NP18-148_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP162_ctrl_NP18-148_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP162_ctrl_NP18-148_PFC_bulkAligned.sortedByCoord.out.bam.err
# conv... |
37b18b8e7f7b2cbc640dbf7dc9783a03524d0cc3a2095ed015d6a1ea555be63f | Shell | 610 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP189_ctrl_NP18-148_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP189_ctrl_NP18-148_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP189_ctrl_NP18-148_AMY_bulkAligned.sortedByCoord.out.bam.err
# con... |
4298cd73335b6d16c3eeb3337948a196e4b224f4378713271b65eb9c7f98fc4b | Shell | 610 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP188_ctrl_NP16-293_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP188_ctrl_NP16-293_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP188_ctrl_NP16-293_AMY_bulkAligned.sortedByCoord.out.bam.err
# con... |
5a8300a2aad8f41d8eae60eb041c4fcec788410744172913f1279b8747243ff0 | Shell | 610 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP186_ctrl_NP16-119_AMY_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP186_ctrl_NP16-119_AMY_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP186_ctrl_NP16-119_AMY_bulkAligned.sortedByCoord.out.bam.err
# con... |
77c941688db1528c86cd15ff1a3ae05dca4dc31e063dc918f532770f4131c932 | Shell | 610 | 15 | #!/bin/bash
#SBATCH -n 30
#SBATCH -N 1
#SBATCH -A csens2024-3-2
#SBATCH -t 100:00:00
#SBATCH -J bw_ASAP176_ctrl_NP18-148_PUT_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP176_ctrl_NP18-148_PUT_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP176_ctrl_NP18-148_PUT_bulkAligned.sortedByCoord.out.bam.err
# con... |
7e47ae37d7bb81225589ba322e559d26e96e06ec142f8cdc78fff9772cf368c6 | Shell | 619 | 15 | #!/bin/bash
#SBATCH -N 1
#SBATCH --ntasks-per-node=20
#SBATCH -A csens2024-3-2
#SBATCH -t 30:00:00
#SBATCH -J bw_ASAP231_ctrl_NP23-21_PFC_bulkAligned.sortedByCoord.out.bam
#SBATCH -o bw_ASAP231_ctrl_NP23-21_PFC_bulkAligned.sortedByCoord.out.bam.out
#SBATCH -e bw_ASAP231_ctrl_NP23-21_PFC_bulkAligned.sortedByCoord.out.ba... |
c3887c4aceb5a1cfec07eb40e60a72ab1b653e3667c65bf302e0150dab37fe48 | Shell | 621 | 25 | # intra block realignment
ret_counter=0
task_counter=0
inv_counter=0
mkdir $workingDir/intraBlock
for f in $functionalsDir/*.nii* $invertedDir/*.nii*; do
case "$f" in
*RetinotopyR2x2s1s*)
filename=ret
counter=$ret_counter
ret_counter=$(($ret_counter + 1)) ;;
*silent*)
filename=t... |
0fbe90d2e1c5127bc9b8c447f01ce4f234e9521dd08fcb12be9026c3f43f07ca | Shell | 624 | 35 | #!/bin/sh
#NETSCAPE='/u3/local/hines/netscape/netscape'
NETSCAPE=`which netscape`
help='http://www.neuron.yale.edu/neuron/help'
#help="file:$NEURONHOME/html/help"
#dict=$NEURONHOME/lib/helpdict
#echo "$*"
#url=`sed -n '/^'"$*"'/{
# s/.* //p
# q
#}' $dict`
url=$1
if [ -z "$url" ] ; then
echo "|$*|"
url='conten... |
a636b7d69698dd2b9cc5f741c87acf59dee67f3b9fee6016456eeee1109f9235 | Shell | 627 | 9 | # wget -c https://github.com/HuiyangYu/PanDepth/releases/download/v2.64.tar.gz
# tar zvxf PanDepth-2.26-Linux-x86_64.tar.gz
# ./PanDepth-2.26-Linux-x86_64/pandepth -i /cluster/projects/nn9036k/TK/TK92L006.markdup.sorted.9036k/TK/TK92L006.markdup.sorted.bam.pandepth.out
for i in /cluster/projects/nn9036k/TK/*.markdup.so... |
2db796938a28b62668702419d4d0ea14ced4019259b39b556fc317e94498c3a5 | Shell | 634 | 8 | rsync --verbose --progress --stats --recursive --times --perms --links --delete --exclude "*bak" $HOME/home/ ash022@129.177.122.138:/Home/siv11/ash022/home/
rsync --verbose --progress --stats --recursive --times --perms --links --delete --exclude "*bak" $HOME/home/ ash022@129.177.122.138:/Home/siv11/ash022/home/
rs... |
e69263f9f693f908392ef6930358e93fd8ff811efd30b15b2ad700c953959672 | Shell | 639 | 16 | #!/bin/bash
#SBATCH -A diz
#SBATCH --nodes 1
#SBATCH --ntasks 1
#SBATCH --mem 40G
#SBATCH --time 06:00:00
#SBATCH --qos=highest
#SBATCH -o mask_to_coordinate.log
#SBAtCH -e mask_to_coordinate.err
#SBATCH --mail-type=END,FAIL
#SBATCH --mail-user=dorothy.cheng@embl.de
export PATH="/g/scb/mahamid/Dorothy/Conda/miniconda3... |
1bb89aa1e4281ed772b5ca9e56459bb7bd643c9c539d32d3897f47de3f8113fb | Shell | 645 | 24 |
ROIargumentString="$subjectsDir/5_laminar/allLaminarROIsMask -bin"
for d in $subjectsDir/A_miscResults/FMRI/models/no_smth_glm_*;do
contrastArgumentString=""
counter=0
for contrastVol in ${contrastVols[@]};do
thresh=${threshold[$counter]}
counter=$(($counter + 1))
# those are difference volumes
if [[ $... |
b419246a998b15fde89acb8b7041bf9269d9f90f5d533616fb68e7ed9c8b55b9 | Shell | 653 | 14 | # if specified in the config, the FreeSurfer environment is set up.
if [[ $setupFreesurfer -eq 1 ]]; then
export FREESURFER_HOME=$freesurferHome
source $FREESURFER_HOME/SetUpFreeSurfer.sh
fi
# SUBJECTS_DIR is the folder were all files of a particular subject are stored. Hence the subject itself is called 0_freesurfe... |
c7de6592740ca86e45aa3f18871bd4bc3c16cf6d7925d596c6f6cb62279d3086 | Shell | 657 | 13 | for F in "MYBrelated" "Homeobox" "C2C2dof" "WRKY" "TCP" "bZIP" "MYB" "MADS" "bHLH" "Trihelix" "NAC" "G2like" "HSF" "AP2EREBP" "C2C2gata" "MYBrelated" "Homeobox" "C2C2dof" "WRKY" "TCP" "bZIP" "MYB" "MADS" "bHLH"... |
e4e44ec47ff3a3bb54aeaeaf298c84a0ce1e91e7dd4d5d7711c5a8f373914d87 | Shell | 662 | 22 | #!/bin/bash
while true
do
qstat -u $1
jobsActive=$(qstat -u $1 | grep ":[0-9][0-9] R" | grep R | wc -l)
jobsWaiting=$(qstat -u $1 | grep ":[0-9][0-9] Q" | grep Q | wc -l)
memActive=0
memUsed=0
for currMem in $(qstat -u $1 | grep ":[0-9][0-9] Q" | grep Q | grep -o '[[:digit:]]*'gb | grep -o '[[:digit:]]*') ;do
memActi... |
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