All inputs files are taken from public tutorials. See https://github.com/SciGaP/XSEDE-Job-Scripts/ for sources.
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Amber.oJobID (nothing interesting)
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pdb1y6l-EM-vacuum.gro
GROMACS.oJobID
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log.lammps
LAMMPS.oJobID
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Al_exc3.wfc4 ESPRESSO.oJobID (nothing)
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h2o_freq.zmat NWCHEM.oJobID
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both.fa jellyfish.kmers.fa both.fa.read_count scaffolding_entries.sam bowtie.nameSorted.sam target.1.ebwt bowtie.nameSorted.sam.finished target.2.ebwt bowtie.out.finished target.3.ebwt chrysalis target.4.ebwt inchworm.K25.L25.fa target.fa inchworm.K25.L25.fa.finished target.fa.finished inchworm.kmer_count target.rev.1.ebwt iworm_bundle_file_listing.txt target.rev.2.ebwt iworm_scaffolds.txt Trinity.fasta iworm_scaffolds.txt.finished Trinity.timing jellyfish.1.finished
...