NEWS: Removed duplicate entries.

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Ole Tange 2017-06-05 11:26:39 +02:00
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@ -142,10 +142,6 @@
adaptive methods adaptive methods
https://link.springer.com/article/10.1134/S0016793217010108 https://link.springer.com/article/10.1134/S0016793217010108
* GNU Parallel was cited in: Proper experimental design requires
randomization/balancing of molecular ecology experiments
http://biorxiv.org/content/biorxiv/early/2017/02/17/109280.full.pdf
* GNU Parallel was cited in: Higher likelihood of multiple bit-flips * GNU Parallel was cited in: Higher likelihood of multiple bit-flips
due to neutron-induced strikes on logic gates due to neutron-induced strikes on logic gates
https://arxiv.org/pdf/1612.08239.pdf https://arxiv.org/pdf/1612.08239.pdf
@ -162,11 +158,6 @@
Theory for Many External Particles Theory for Many External Particles
https://arxiv.org/pdf/1611.08003.pdf https://arxiv.org/pdf/1611.08003.pdf
* GNU Parallel was cited in: Large-scale benchmarking reveals false
discoveries and count transformation sensitivity in 16S rRNA gene
amplicon data analysis methods used in microbiome studies
https://microbiomejournal.biomedcentral.com/articles/10.1186/s40168-016-0208-8
* GNU Parallel was cited in: Operations Research Applications in * GNU Parallel was cited in: Operations Research Applications in
Nuclear Energy Nuclear Energy
https://dspace.library.colostate.edu/bitstream/handle/11124/170687/Johnson_mines_0052E_11207.pdf?sequence=1&isAllowed=y https://dspace.library.colostate.edu/bitstream/handle/11124/170687/Johnson_mines_0052E_11207.pdf?sequence=1&isAllowed=y
@ -218,12 +209,6 @@
gout, and the apple genome gout, and the apple genome
https://ourarchive.otago.ac.nz/bitstream/handle/10523/7060/BoocockJames2016MSc.pdf?sequence=3 https://ourarchive.otago.ac.nz/bitstream/handle/10523/7060/BoocockJames2016MSc.pdf?sequence=3
* GNU Parallel was cited in: Determination of crystal structures of
proteins of unknown identity using a marathon molecular replacement
procedure: structure of Stenotrophomonas maltophilia
phosphate-binding protein
https://www.researchgate.net/publication/308186413_Determination_of_crystal_structures_of_proteins_of_unknown_identity_using_a_marathon_molecular_replacement_procedure_Structure_of_Stenotrophomonas_maltophilia_phosphate-binding_protein
* GNU Parallel was cited in: Reaction rates for reaction-diffusion * GNU Parallel was cited in: Reaction rates for reaction-diffusion
kinetics on unstructured meshes kinetics on unstructured meshes
http://aip.scitation.org/doi/10.1063/1.4975167 http://aip.scitation.org/doi/10.1063/1.4975167
@ -333,24 +318,12 @@
transcript-expression levels in public cancer compendia transcript-expression levels in public cancer compendia
http://www.nature.com/articles/srep39259 http://www.nature.com/articles/srep39259
* GNU Parallel was cited in: Learning string distance with smoothing
for OCR spelling correction
http://paperity.org/p/78557440/learning-string-distance-with-smoothing-for-ocr-spelling-correction
* GNU Parallel was cited in: Transient compute clustering with GNU
Parallel and sshfs
https://gist.github.com/Brainiarc7/24c966c8a001061ee86cc4bc05826bf4
* GNU Parallel was cited in: Determination of crystal structures of * GNU Parallel was cited in: Determination of crystal structures of
proteins of unknown identity using a marathon molecular replacement proteins of unknown identity using a marathon molecular replacement
procedure: Structure of Stenotrophomonas maltophilia procedure: Structure of Stenotrophomonas maltophilia
phosphate-binding protein phosphate-binding protein
https://www.researchgate.net/publication/308186413_Determination_of_crystal_structures_of_proteins_of_unknown_identity_using_a_marathon_molecular_replacement_procedure_Structure_of_Stenotrophomonas_maltophilia_phosphate-binding_protein https://www.researchgate.net/publication/308186413_Determination_of_crystal_structures_of_proteins_of_unknown_identity_using_a_marathon_molecular_replacement_procedure_Structure_of_Stenotrophomonas_maltophilia_phosphate-binding_protein
* GNU Parallel was cited in: The Outer Solar System Origins Survey:
I. Design and First-Quarter Discoveries
https://arxiv.org/pdf/1511.02895v2.pdf
* GNU Parallel was cited in: Large-scale benchmarking reveals false * GNU Parallel was cited in: Large-scale benchmarking reveals false
discoveries and count transformation sensitivity in 16S rRNA gene discoveries and count transformation sensitivity in 16S rRNA gene
amplicon data analysis methods used in microbiome studies amplicon data analysis methods used in microbiome studies
@ -360,6 +333,9 @@
RGB-space Geometry RGB-space Geometry
https://cs.gmu.edu/~ygingold/singleimage/Decomposing%20Images%20into%20Layers%20via%20RGB-space%20Geometry%20(Tan%20et%20al%202016%20TOG)%20small.pdf https://cs.gmu.edu/~ygingold/singleimage/Decomposing%20Images%20into%20Layers%20via%20RGB-space%20Geometry%20(Tan%20et%20al%202016%20TOG)%20small.pdf
* Transient compute clustering with GNU Parallel and sshfs
https://gist.github.com/Brainiarc7/24c966c8a001061ee86cc4bc05826bf4
* 4 Ways to Batch Convert Your PNG to JPG and Vice-Versa * 4 Ways to Batch Convert Your PNG to JPG and Vice-Versa
http://www.tecmint.com/linux-image-conversion-tools/ http://www.tecmint.com/linux-image-conversion-tools/
@ -434,9 +410,6 @@
approach: IRMA, the iterative refinement meta-assembler approach: IRMA, the iterative refinement meta-assembler
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5011931/ http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5011931/
* GNU Parallel is used in Gene Set Omic Analysis:
https://bitbucket.org/srp33/gsoa
* Using GNU Parallel and ImageMagick for Conversions * Using GNU Parallel and ImageMagick for Conversions
https://blog.fractalcomic.com/tutorials/using-gnu-parallel-and-imagemagick-for-conversions/ https://blog.fractalcomic.com/tutorials/using-gnu-parallel-and-imagemagick-for-conversions/
@ -528,10 +501,6 @@
correlation analysis of genomic data correlation analysis of genomic data
http://biorxiv.org/content/biorxiv/suppl/2016/04/06/047217.DC1/047217-1.pdf http://biorxiv.org/content/biorxiv/suppl/2016/04/06/047217.DC1/047217-1.pdf
* GNU Parallel was cited in: Computational Design of DNA-Binding
Proteins
http://link.springer.com/protocol/10.1007/978-1-4939-3569-7_16
* GNU Parallel was cited in: Math Indexer and Searcher under the Hood: * GNU Parallel was cited in: Math Indexer and Searcher under the Hood:
Fine-tuning Query Expansion and Unification Strategies Fine-tuning Query Expansion and Unification Strategies
http://research.nii.ac.jp/ntcir/workshop/OnlineProceedings12/pdf/ntcir/MathIR/05-NTCIR12-MathIR-RuzickaM.pdf http://research.nii.ac.jp/ntcir/workshop/OnlineProceedings12/pdf/ntcir/MathIR/05-NTCIR12-MathIR-RuzickaM.pdf
@ -630,7 +599,7 @@
http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=7407131 http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=7407131
* GNU Parallel was cited in: Oops, my tests broke the build: An * GNU Parallel was cited in: Oops, my tests broke the build: An
analysis of Travis CI buildswith GitHub analysis of Travis CI builds with GitHub
https://peerj.com/preprints/1984/ https://peerj.com/preprints/1984/
* GNU Parallel was cited in: Drosophila Muller F Elements Maintain a * GNU Parallel was cited in: Drosophila Muller F Elements Maintain a
@ -642,10 +611,6 @@
Environments Environments
http://biorxiv.org/content/biorxiv/early/2016/03/24/022707.full.pdf http://biorxiv.org/content/biorxiv/early/2016/03/24/022707.full.pdf
* GNU Parallel was cited in: Functional enrichments of disease
variants across thousands of independent loci in eight diseases
http://biorxiv.org/content/early/2016/04/11/048066.abstract
* GNU Parallel was cited in: PleaseTM: Enabling Transaction Conflict * GNU Parallel was cited in: PleaseTM: Enabling Transaction Conflict
Management in Requester-wins Hardware Transactional Memory Management in Requester-wins Hardware Transactional Memory
http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=7446072 http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=7446072
@ -669,10 +634,6 @@
https://dl.acm.org/citation.cfm?id=2884799 (It has the cutest https://dl.acm.org/citation.cfm?id=2884799 (It has the cutest
thumbnail graphs I have ever seen scattered all over the text) thumbnail graphs I have ever seen scattered all over the text)
* GNU Parallel was cited in: StrAuto: Automation and Parallelization
of STRUCTURE Analysis
http://vchhatre.w3.uvm.edu/download/strauto/strauto_doc.pdf
* GNU Parallel was cited in: Data processing pipeline for serial * GNU Parallel was cited in: Data processing pipeline for serial
femtosecond crystallography at SACLA femtosecond crystallography at SACLA
http://journals.iucr.org/j/issues/2016/03/00/zw5001/index.html http://journals.iucr.org/j/issues/2016/03/00/zw5001/index.html
@ -680,14 +641,6 @@
* GNU Parallel was cited in: Reconstruction of Fine-Scale Auroral * GNU Parallel was cited in: Reconstruction of Fine-Scale Auroral
Dynamics http://arxiv.org/pdf/1512.01460.pdf Dynamics http://arxiv.org/pdf/1512.01460.pdf
* GNU Parallel was cited in: The Outer Solar System Origins Survey:
I. Design and First-Quarter Discoveries
http://arxiv.org/pdf/1511.02895.pdf
* GNU Parallel was cited in: Multiscale Estimation of Binding Kinetics
Using Brownian Dynamics, Molecular Dynamics and Milestoning
http://journals.plos.org/ploscompbiol/article/asset?id=10.1371%2Fjournal.pcbi.1004381.PDF
* GNU Parallel was cited in: Genomic legacy of the African cheetah, * GNU Parallel was cited in: Genomic legacy of the African cheetah,
Acinonyx jubatus Acinonyx jubatus
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4676127/pdf/13059_2015_Article_837.pdf https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4676127/pdf/13059_2015_Article_837.pdf
@ -701,10 +654,6 @@
Genomics, Transcriptomics and Proteogenomics Genomics, Transcriptomics and Proteogenomics
http://journals.plos.org/plosone/article/asset?id=10.1371%2Fjournal.pone.0147221.PDF http://journals.plos.org/plosone/article/asset?id=10.1371%2Fjournal.pone.0147221.PDF
* GNU Parallel was cited in: Stride Search: a general algorithm for
storm detection in high-resolution climate data
http://www.geosci-model-dev-discuss.net/8/7727/2015/gmdd-8-7727-2015.pdf
* GNU Parallel was cited in: How attention influences perceptual * GNU Parallel was cited in: How attention influences perceptual
decision making: Single-trial EEG correlates of drift-diffusion decision making: Single-trial EEG correlates of drift-diffusion
model parameters http://www.cidlab.com/prints/nunez2016attention.pdf model parameters http://www.cidlab.com/prints/nunez2016attention.pdf
@ -740,10 +689,6 @@
Australian Aboriginal population for health-based research Australian Aboriginal population for health-based research
http://www.nature.com/articles/sdata201623 http://www.nature.com/articles/sdata201623
* GNU Parallel was cited in: Computational Design of DNA-Binding
Proteins
http://link.springer.com/protocol/10.1007/978-1-4939-3569-7_16
* GNU Parallel was cited in: Do aye-ayes echolocate? * GNU Parallel was cited in: Do aye-ayes echolocate?
http://biorxiv.org/content/biorxiv/early/2016/04/11/048165.full.pdf http://biorxiv.org/content/biorxiv/early/2016/04/11/048165.full.pdf
@ -792,18 +737,10 @@
* Better CPU detection on OpenIndiana. * Better CPU detection on OpenIndiana.
* GNU Parallel was cited in: How Can We Measure the Similarity Between
Resumes of Selected Candidates for a Job?
https://www.researchgate.net/publication/275954089_How_can_we_measure_the_similarity_between_resumes_of_selected_candidates_for_a_job
* GNU Parallel was cited in: Automatic Methods for Assisted * GNU Parallel was cited in: Automatic Methods for Assisted
Recruitment Recruitment
https://www.researchgate.net/publication/297738658_Automatic_Methods_for_Assisted_Recruitment https://www.researchgate.net/publication/297738658_Automatic_Methods_for_Assisted_Recruitment
* GNU Parallel was cited in: Tools and techniques for computational
reproducibility
http://biorxiv.org/content/biorxiv/early/2016/03/17/022707.full.pdf
* GNU Parallel was cited in: Reinterpretation of ATLAS 8 TeV searches * GNU Parallel was cited in: Reinterpretation of ATLAS 8 TeV searches
for Natural SUSY with a R-Sneutrino LSP for Natural SUSY with a R-Sneutrino LSP
http://arxiv.org/pdf/1603.06130.pdf http://arxiv.org/pdf/1603.06130.pdf
@ -815,9 +752,6 @@
* A basic demo of how GNU Parallel can speed up execution of commands * A basic demo of how GNU Parallel can speed up execution of commands
https://www.youtube.com/watch?v=kl8LO2jcvMc https://www.youtube.com/watch?v=kl8LO2jcvMc
* Downloading a list of URLs
http://blog.gypsydave5.com/2016/02/04/xargs-and-curl/
* qbatch uses GNU Parallel: https://pypi.python.org/pypi/qbatch/1.0rc2 * qbatch uses GNU Parallel: https://pypi.python.org/pypi/qbatch/1.0rc2
* FaceCrop uses GNU Parallel: https://github.com/EderSantana/FaceCrop * FaceCrop uses GNU Parallel: https://github.com/EderSantana/FaceCrop
@ -954,15 +888,6 @@
Environments Environments
http://research.gold.ac.uk/15078/1/COM_thesis_JonesD_2015.pdf http://research.gold.ac.uk/15078/1/COM_thesis_JonesD_2015.pdf
* GNU Parallel was cited in: Contrasting genetic architectures of
schizophrenia and other complex diseases using fast
variance-components analysis
http://www.nature.com/ng/journal/v47/n12/full/ng.3431.html
* GNU Parallel was cited in: Efficient Retrieval of Key Material for
Inspecting Potentially Malicious Traffic in the Cloud
http://www.cs.bham.ac.uk/~bxb/Papres/2015.1.pdf
* GNU Parallel was cited in: Achieving Consistent Doppler Measurements * GNU Parallel was cited in: Achieving Consistent Doppler Measurements
from SDO/HMI Vector Field Inversions from SDO/HMI Vector Field Inversions
http://arxiv.org/pdf/1511.06500.pdf http://arxiv.org/pdf/1511.06500.pdf
@ -1054,9 +979,6 @@
* GNU Parallel is used in TraitAR: * GNU Parallel is used in TraitAR:
https://testpypi.python.org/pypi/traitar/0.1.4 https://testpypi.python.org/pypi/traitar/0.1.4
* GNU Parallel is used in youtube-dl-parallel:
https://github.com/dlh/youtube-dl-parallel
* A parallel and fast way to download multiple files * A parallel and fast way to download multiple files
http://onetipperday.blogspot.com/2015/10/a-parallel-and-fast-way-to-download.html http://onetipperday.blogspot.com/2015/10/a-parallel-and-fast-way-to-download.html
@ -1075,22 +997,13 @@
* GNU Parallel was cited in: BL1: 2D Potts Model with a Twist * GNU Parallel was cited in: BL1: 2D Potts Model with a Twist
https://sucs.swan.ac.uk/~rjames93/Dissertation.pdf https://sucs.swan.ac.uk/~rjames93/Dissertation.pdf
* GNU Parallel was cited in: DockBench: An Integrated Informatic
Platform Bridging the Gap between the Robust Validation of Docking
Protocols and Virtual Screening Simulations
http://www.mdpi.com/1420-3049/20/6/9977/pdf
* GNU Parallel was cited in: A Scalable Parallel Implementation of * GNU Parallel was cited in: A Scalable Parallel Implementation of
Evolutionary Algorithms for Multi-Objective Optimization on GPUs Evolutionary Algorithms for Multi-Objective Optimization on GPUs
http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=7257074 http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=7257074
* GNU Parallel was cited in: Tools and techniques for computational
reproducibility
http://biorxiv.org/content/biorxiv/early/2015/07/17/022707.full.pdf
* GNU Parallel was cited in: How Can We Measure the Similarity Between * GNU Parallel was cited in: How Can We Measure the Similarity Between
Résumés of Selected Candidates for a Job? Résumés of Selected Candidates for a Job?
http://www.researchgate.net/publication/275954089_How_can_we_measure_the_similarity_between_rsums_of_selected_candidates_for_a_job https://www.researchgate.net/publication/275954089_How_can_we_measure_the_similarity_between_rsums_of_selected_candidates_for_a_job
* GNU Parallel was cited in: Interplay of cell dynamics and epithelial * GNU Parallel was cited in: Interplay of cell dynamics and epithelial
tension during morphogenesis of the Drosophila pupal wing tension during morphogenesis of the Drosophila pupal wing
@ -1124,10 +1037,6 @@
* Version of GNU Parallel that uses PostgreSQL as backend * Version of GNU Parallel that uses PostgreSQL as backend
https://github.com/stephen-fralich/parallel-sql/ https://github.com/stephen-fralich/parallel-sql/
* A composite genome approach to identify phylogenetically informative
data from next-generation sequencing
http://www.biomedcentral.com/content/pdf/s12859-015-0632-y.pdf
* SpeedSeq: ultra-fast personal genome analysis and interpretation * SpeedSeq: ultra-fast personal genome analysis and interpretation
http://www.nature.com/nmeth/journal/vaop/ncurrent/full/nmeth.3505.html http://www.nature.com/nmeth/journal/vaop/ncurrent/full/nmeth.3505.html
@ -1181,10 +1090,6 @@
* GNU Parallel was cited in: A Fast Compiler for NetKAT * GNU Parallel was cited in: A Fast Compiler for NetKAT
http://arxiv.org/pdf/1506.06378.pdf http://arxiv.org/pdf/1506.06378.pdf
* GNU Parallel was cited in: Flexible Modeling of Epidemics with an
Empirical Bayes Framework
http://www.stat.cmu.edu/~ryantibs/papers/empbayes.pdf
* GNU Parallel was cited in: Decomposing Time-Lapse Paintings into * GNU Parallel was cited in: Decomposing Time-Lapse Paintings into
Layers Layers
http://cs.gmu.edu/~ygingold/timemap/Decomposing%20Time-Lapse%20Paintings%20into%20Layers%20(Tan%20et%20al%202015%20SIGGRAPH)%20600dpi.pdf http://cs.gmu.edu/~ygingold/timemap/Decomposing%20Time-Lapse%20Paintings%20into%20Layers%20(Tan%20et%20al%202015%20SIGGRAPH)%20600dpi.pdf
@ -1238,11 +1143,6 @@
* Q(...) can be used in {= =} to shell quote a string. * Q(...) can be used in {= =} to shell quote a string.
* GNU Parallel was cited in: Contrasting regional architectures of
schizophrenia and other complex diseases using fast variance
components analysis
http://biorxiv.org/content/biorxiv/early/2015/06/05/016527.full.pdf
* GNU Parallel was cited in: DockBench: An Integrated Informatic * GNU Parallel was cited in: DockBench: An Integrated Informatic
Platform Bridging the Gap between the Robust Validation of Docking Platform Bridging the Gap between the Robust Validation of Docking
Protocols and Virtual Screening Simulations Protocols and Virtual Screening Simulations
@ -1264,10 +1164,6 @@
phylogenetically informative data from next-generation sequencing phylogenetically informative data from next-generation sequencing
http://www.biomedcentral.com/content/pdf/s12859-015-0632-y.pdf http://www.biomedcentral.com/content/pdf/s12859-015-0632-y.pdf
* GNU Parallel was cited in: Tutorial: Lorenz-Mie theory for 2D
scattering and resonance calculations
http://arxiv.org/pdf/1505.07691.pdf
* GNU Parallel is used in: taxator-tk * GNU Parallel is used in: taxator-tk
http://algbio.cs.uni-duesseldorf.de/webapps/wa-download/ http://algbio.cs.uni-duesseldorf.de/webapps/wa-download/
@ -1306,10 +1202,6 @@
Metagenomics and RNA-seq Metagenomics and RNA-seq
http://biorxiv.org/content/biorxiv/early/2015/05/05/018085.full.pdf http://biorxiv.org/content/biorxiv/early/2015/05/05/018085.full.pdf
* GNU Parallel was cited in: Toward Enhanced Metadata Quality of
Large-Scale Digital Libraries: Estimating Volume Time Range
https://www.ideals.illinois.edu/bitstream/handle/2142/73656/186_ready.pdf
* GNU Parallel was cited in: Sequencing the cap-snatching repertoire * GNU Parallel was cited in: Sequencing the cap-snatching repertoire
of H1N1 influenza provides insight into the mechanism of viral of H1N1 influenza provides insight into the mechanism of viral
transcription initiation transcription initiation
@ -1319,11 +1211,6 @@
long and error-free DNA reads long and error-free DNA reads
http://www.biomedcentral.com/content/pdf/s12864-015-1519-z.pdf http://www.biomedcentral.com/content/pdf/s12864-015-1519-z.pdf
* GNU Parallel was cited in: Contrasting regional architectures of
schizophrenia and other complex diseases using fast variance
components analysis
http://biorxiv.org/content/biorxiv/early/2015/03/13/016527.full.pdf
* GNU Parallel was used (unfortunately with wrong citation) in: * GNU Parallel was used (unfortunately with wrong citation) in:
Comparing the CarbonTracker and TM5-4DVar data assimilation systems Comparing the CarbonTracker and TM5-4DVar data assimilation systems
for CO2 surface flux inversions for CO2 surface flux inversions
@ -1351,9 +1238,6 @@
* Importing huge databases faster * Importing huge databases faster
https://www.lullabot.com/blog/article/importing-huge-databases-faster https://www.lullabot.com/blog/article/importing-huge-databases-faster
* Run multiple ssh commands in parallel with GNU Parallel
https://www.ameir.net/blog/archives/380-run-multiple-ssh-commands-in-parallel-with-gnu-parallel.html/comment-page-1
* Parallel? Gnu parallel! https://debian.pro/1834 * Parallel? Gnu parallel! https://debian.pro/1834
* Bug fixes and man page updates. * Bug fixes and man page updates.
@ -1386,11 +1270,6 @@ New in this release:
Large-Scale Digital Libraries: Estimating Volume Time Range Large-Scale Digital Libraries: Estimating Volume Time Range
https://www.ideals.illinois.edu/bitstream/handle/2142/73656/186_ready.pdf https://www.ideals.illinois.edu/bitstream/handle/2142/73656/186_ready.pdf
* GNU Parallel was cited in: Contrasting regional architectures of
schizophrenia and other complex diseases using fast variance
components analysis
http://biorxiv.org/content/biorxiv/early/2015/03/13/016527.full.pdf
* GNU Parallel was cited in: Experimental study on the Wind Farm * GNU Parallel was cited in: Experimental study on the Wind Farm
Substation Cable Installation Problem Substation Cable Installation Problem
http://i11www.iti.uni-karlsruhe.de/_media/teaching/theses/ma-schmitz-14.pdf http://i11www.iti.uni-karlsruhe.de/_media/teaching/theses/ma-schmitz-14.pdf
@ -1425,9 +1304,6 @@ New in this release:
* Add an ENVI header to JAXA Global Mangrove Watch PALSAR tiles * Add an ENVI header to JAXA Global Mangrove Watch PALSAR tiles
https://spectraldifferences.wordpress.com/2015/03/24/add-an-envi-header-to-jaxa-global-mangrove-watch-palsar-tiles/ https://spectraldifferences.wordpress.com/2015/03/24/add-an-envi-header-to-jaxa-global-mangrove-watch-palsar-tiles/
* GNU Parallel (Sebuah Uji Coba)
http://kaka.prakasa.my.id/2014/09/04/gnu-parallel-sebuah-uji-coba/
* 你见过的最牛逼的命令行程序是什么? * 你见过的最牛逼的命令行程序是什么?
http://www.zhihu.com/question/29257300 http://www.zhihu.com/question/29257300
@ -1549,10 +1425,6 @@ New in this release:
Analysis of Big Data from Mars: A Noachis Terra Case Study Analysis of Big Data from Mars: A Noachis Terra Case Study
http://link.springer.com/chapter/10.1007/978-3-319-13865-7_25 http://link.springer.com/chapter/10.1007/978-3-319-13865-7_25
* GNU Parallel was cited in: Towards Recommender Engineering Tools and
Experiments for Identifying Recommender Differences
http://elehack.net/research/thesis/mde-thesis.pdf
* GNU Parallel was used (unfortunately with wrong citation) in: * GNU Parallel was used (unfortunately with wrong citation) in:
Performance and Scaling Comparison Study of RDBMS and NoSQL Performance and Scaling Comparison Study of RDBMS and NoSQL
(MongoDB) (MongoDB)
@ -1610,10 +1482,6 @@ New in this release:
* A bug fix in replacement strings caused rewrite of the replacement * A bug fix in replacement strings caused rewrite of the replacement
function. This makes use of replacement strings alpha quality. function. This makes use of replacement strings alpha quality.
* GNU Parallel was cited in: SlideToolkit: An Assistive Toolset for
the Histological Quantification of Whole Slide Images
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0110289
* GNU Parallel was cited in: Improving Energy and Performance with * GNU Parallel was cited in: Improving Energy and Performance with
Spintronics Caches in Multicore Systems Spintronics Caches in Multicore Systems
http://link.springer.com/chapter/10.1007/978-3-319-14313-2_24 http://link.springer.com/chapter/10.1007/978-3-319-14313-2_24
@ -1638,9 +1506,6 @@ New in this release:
* GNU Parallel was cited in: Clonal interference and Mullerʼs ratchet * GNU Parallel was cited in: Clonal interference and Mullerʼs ratchet
in spatial habitats http://iopscience.iop.org/1478-3975/11/5/056003 in spatial habitats http://iopscience.iop.org/1478-3975/11/5/056003
* GNU Parallel was cited in: Web-scale content reuse detection
ftp://info.isi.edu/isi-pubs/tr-692.pdf
* GNU Parallel was cited in: Computação Verde na Camada de Aplicação * GNU Parallel was cited in: Computação Verde na Camada de Aplicação
https://linux.ime.usp.br/~tpaiva/mac0499/files/monografia.pdf https://linux.ime.usp.br/~tpaiva/mac0499/files/monografia.pdf
@ -1734,7 +1599,7 @@ New in this release:
* GNU Parallel was cited in: SlideToolkit: An Assistive Toolset for * GNU Parallel was cited in: SlideToolkit: An Assistive Toolset for
the Histological Quantification of Whole Slide Images the Histological Quantification of Whole Slide Images
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0110289#close http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0110289
* GNU Parallel was cited in: Exploring a multiprocessor design space * GNU Parallel was cited in: Exploring a multiprocessor design space
to analyze the impact of using STT-RAM in the memory hierarchy to analyze the impact of using STT-RAM in the memory hierarchy
@ -1786,9 +1651,6 @@ New in this release:
* Comparing Golang, Scala, Elixir and Ruby for ETL * Comparing Golang, Scala, Elixir and Ruby for ETL
http://www.dimroc.com/2014/09/29/etl-language-showdown/ http://www.dimroc.com/2014/09/29/etl-language-showdown/
* Parallelizing Batch Jobs for Fun and Profit
http://mikeseidle.com/tech/programming/2013/03/parallelizing-batch-jobs
* Assemble a list of which of these hosts are up or down * Assemble a list of which of these hosts are up or down
http://opsfun.wordpress.com/2014/03/31/gnu-parallel/ http://opsfun.wordpress.com/2014/03/31/gnu-parallel/
@ -2471,9 +2333,6 @@ New in this release:
* Compression of files in parallel using GNU parallel * Compression of files in parallel using GNU parallel
http://codextechnicanum.blogspot.dk/2013/07/compression-of-files-in-parallel-using.html http://codextechnicanum.blogspot.dk/2013/07/compression-of-files-in-parallel-using.html
* Using GNU Parallel to roll-your-own Map Reduce!
http://www.rankfocus.com/?p=1
* Using GNU Parallel with Amazon * Using GNU Parallel with Amazon
media.amazonwebservices.com/AWS_Amazon_EMR_Best_Practices.pdf media.amazonwebservices.com/AWS_Amazon_EMR_Best_Practices.pdf
@ -2868,12 +2727,6 @@ New in this release:
* Blog post: Running commands in parallel using bash. * Blog post: Running commands in parallel using bash.
http://blog.michaelboman.org/2012/04/running-commands-in-parallel-using-bash.html http://blog.michaelboman.org/2012/04/running-commands-in-parallel-using-bash.html
* Blog post: Efficient log processing.
http://www.francoismaillet.com/blog/?p=399
* Blog post about GNU Parallel and Amazon EC2.
http://blog.kevinformatics.com/post/4970574713/interested-in-your-experience-using-gnu-parallel-in
* Blog post in Hungarian. * Blog post in Hungarian.
http://commandline.blog.hu/2012/05/03/gnu_parallel http://commandline.blog.hu/2012/05/03/gnu_parallel
@ -3050,9 +2903,6 @@ New in this release:
* Blog post on using GNU Parallel of Mac OS X. * Blog post on using GNU Parallel of Mac OS X.
http://www.0xcb0.com/2011/10/19/running-parallel-bash-tasks-on-os-x/ http://www.0xcb0.com/2011/10/19/running-parallel-bash-tasks-on-os-x/
* Blog post in English about using zip with GNU Parallel.
http://nuclear-imaging.info/site_content/2011/05/11/gnu-parallel/
* Blog post in English by researcher. * Blog post in English by researcher.
http://zandyware.wordpress.com/2011/10/15/gnu-parallell-make-best-use-of-your-multicore-computer/ http://zandyware.wordpress.com/2011/10/15/gnu-parallell-make-best-use-of-your-multicore-computer/
@ -3352,9 +3202,6 @@ New in this release:
* Using GNU Parallel instead of xargs. Thanks to James Cuff. * Using GNU Parallel instead of xargs. Thanks to James Cuff.
http://blog.jcuff.net/2011/02/on-train-ride-in.html http://blog.jcuff.net/2011/02/on-train-ride-in.html
* Using GNU Parallel from 0install (German). Thanks to AdaMin.
http://forum.ubuntuusers.de/topic/gnu-parallel-mit-zero-install-kurzinfo-kein-wi/
* Bug fixes and man page updates. * Bug fixes and man page updates.

View file

@ -174,8 +174,8 @@ http://freshmeat.net/projects/parallel/releases/new
https://joindiaspora.com/stream https://joindiaspora.com/stream
New release of #GNU Parallel pidk/0 New in this release pidk/2 See the intro videos pidk/1 New release of #GNU Parallel pi.dk/0 New in this release pi.dk/2 See the intro videos pi.dk/1
10 secs installation: wget -O - pidk/3|bash 10 secs installation: wget -O - pi.dk/3|bash
[x] Twitter [x] Twitter
Aspect: Public Aspect: Public
@ -196,82 +196,55 @@ file:///home/tange/privat/parallel/doc/release_new_version
from:tange@gnu.org from:tange@gnu.org
to:parallel@gnu.org, bug-parallel@gnu.org to:parallel@gnu.org, bug-parallel@gnu.org
Subject: GNU Parallel 20170522 ('Macron') released [stable] Subject: GNU Parallel 20170622 ('Manchester') released <<[stable]>>
GNU Parallel 20170522 ('Macron') [stable] has been released. It is available for download at: http://ftpmirror.gnu.org/parallel/ GNU Parallel 20170622 ('Manchester') <<[stable]>> has been released. It is available for download at: http://ftpmirror.gnu.org/parallel/
Very little new functionality was introduced so this is a good candidate for a stable release.>> <<No new functionality was introduced so this is a good candidate for a stable release.>>
Haiku of the month: Haiku of the month:
Always test your script <<>>
using a --dry-run
or --dr
-- Ole Tange -- Ole Tange
New in this release: New in this release:
* --timeout can now use s=second,m=minute,h=hour,d=day. * Vote for GNU Parallel's community ads on
http://meta.unix.stackexchange.com/a/4356/2972
http://meta.askubuntu.com/a/16750/22307
http://meta.serverfault.com/a/9040/45704
* --dr is now an alias for --dry-run. * Graph for overhead for 1000 jobs has been updated. It remains steadily at 3.5 ms per job on a 1.7 GHz machine https://www.gnu.org/software/parallel/process-time-j2-1700MHz-3000-1000.pdf
* Vote for GNU Parallel's community ads on http://meta.unix.stackexchange.com/a/4356/2972 http://meta.askubuntu.com/a/16750/22307 http://meta.serverfault.com/a/9040/45704 * GNU Parallel was cited in: The topology of the directed clique complex as a network invariant https://springerplus.springeropen.com/articles/10.1186/s40064-016-2022-y
* GNU Parallel was cited in: Feature Detection in Visual Cortex during Different Functional States https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5397493/ * GNU Parallel was cited in:
* GNU Parallel was cited in: From genotype to phenotype: inferring relationships between microbial traits and genomic components https://docserv.uni-duesseldorf.de/servlets/DerivateServlet/Derivate-44622/main.pdf https://support.ehelp.edu.au/support/solutions/articles/6000089713-tips-for-running-jobs-on-your-vm#parallel
* GNU Parallel was cited in: Designing fecal microbiota transplant trials that account for differences in donor stool efficacy http://biorxiv.org/content/biorxiv/early/2016/07/25/065383.full.pdf <<Citation not OK: BAMClipper: removing primers from alignments to minimize false-negative mutations in amplicon next-generation sequencing https://www.nature.com/articles/s41598-017-01703-6>>
* GNU Parallel was cited in: Assessing the predictability of anharmonic vibrational modes at the example of hydroxyl groups - ad hoc construction of localised modes and the influence of structural solutesolvent motifs http://pubs.rsc.org/-/content/articlelanding/2017/cp/c7cp01662j#!divAbstract <<Wrong citation https://iris.sissa.it/retrieve/handle/20.500.11767/36149/10823/And%C3%B2_tesi.pdf>>
* GNU Parallel was cited in: Mapping Environmental Influences on Utility Fire Threat ftp://frapftp.fire.ca.gov/outgoing/transfer/PUC_Map1/Utility%20Fire%20map%201%20final%20review%20and%20development%20report21616.pdf <<Wrong citation http://www.cell.com/cms/attachment/2095201602/2077415979/mmc1.pdf>>
* GNU Parallel was cited in: Weak vs. Strong Disorder Superfluid-Bose Glass Transition in One Dimension https://arxiv.org/pdf/1704.02257.pdf
* GNU Parallel was cited in: Online Automatic Post-editing for MT in a Multi-Domain Translation Environment https://www.aclweb.org/anthology/E/E17/E17-1050.pdf
* GNU Parallel was cited in: Cross-calibration of S-NPP VIIRS moderate-resolution reflective solar bands against MODIS Aqua over dark water scenes http://www.atmos-meas-tech.net/10/1425/2017/amt-10-1425-2017.pdf
* GNU Parallel was cited in: Scattering Networks: Efficient 2D Implementation And Application To Melanoma Classification http://amslaurea.unibo.it/12261/1/nurrito_eugenio_tesi_fisica_magistrale.pdf
* GNU Parallel was cited in: Genome-scale detection of positive selection in 9 primates predicts human-virus evolutionary conflicts http://biorxiv.org/content/biorxiv/early/2017/04/27/131680.full.pdf
* GNU Parallel is used in: Creates a speech dataset for deep learning https://github.com/jupiter126/Create_Speech_Dataset
* GNU Parallel is used in: Parse and process the demixing secrets dataset (DSD100) https://github.com/faroit/dsdtools
* First glance at the gnu parallel utility https://ibiscybernetics.com/blog/2017-04-05.html
* Installing parallel from source https://bitsanddragons.wordpress.com/2017/05/03/installing-parallel-from-source/
* How to run command or code in parallel in bash shell under Linux or Unix https://www.cyberciti.biz/faq/how-to-run-command-or-code-in-parallel-in-bash-shell-under-linux-or-unix/
* Parallel Serial Jobs Using GNU Parallel http://www.hpc.lsu.edu/training/weekly-materials/2017-Spring/gnuparallel-Feb2017.pdf
* GNU Parallel or How to list millions of S3 objects https://joeray.me/gnu-parallel-how-to-list-millions-objects.html
* Which Is the Best Tool for Copying a Large Directory Tree Locally? http://arjon.es/2017/05/11/which-is-the-best-tool-for-copying-a-large-directory-tree-locally/
<<Down https://springerplus.springeropen.com/articles/10.1186/s40064-016-2022-y>>
<<Down http://www.nature.com/nprot/journal/v12/n5/full/nprot.2017.022.html?WT.feed_name=subjects_biotechnology>> <<Down http://www.nature.com/nprot/journal/v12/n5/full/nprot.2017.022.html?WT.feed_name=subjects_biotechnology>>
<<Citation not ok: https://arxiv.org/pdf/1704.08997.pdf>> <<Citation not ok: https://arxiv.org/pdf/1704.08997.pdf>>
<<Probably http://www.sciencedirect.com/science/article/pii/S0044848616312194>>
<<Citation needed: https://sdstrowes.co.uk/publications/sdstrowes-rdns-aaaa.pdf>> <<Citation needed: https://sdstrowes.co.uk/publications/sdstrowes-rdns-aaaa.pdf>>
<<Citation not ok: https://www.nature.com/articles/s41598-017-01703-6>> <<Citation not ok: https://www.nature.com/articles/s41598-017-01703-6>>
<<Probably http://www.sciencedirect.com/science/article/pii/S0044848616312194>>
<<Possibly http://link.springer.com/chapter/10.1007%2F978-3-319-22053-6_46>> <<Possibly http://link.springer.com/chapter/10.1007%2F978-3-319-22053-6_46>>
<<Possibly http://link.springer.com/article/10.1007/s12021-015-9290-5>> <<Possibly http://link.springer.com/article/10.1007/s12021-015-9290-5>>
<<Possibly http://link.springer.com/protocol/10.1007/978-1-4939-3578-9_14>> <<Possibly http://link.springer.com/protocol/10.1007/978-1-4939-3578-9_14>>
<< kontakt GNU Parallel was used (unfortunately without citation) in: Instrumentation and Trace Analysis for Ad-hoc Python Workflows in Cloud Environments http://ieeexplore.ieee.org/xpl/articleDetails.jsp?arnumber=7214035>> <<kontakt GNU Parallel was used (unfortunately without citation) in: Instrumentation and Trace Analysis for Ad-hoc Python Workflows in Cloud Environments http://ieeexplore.ieee.org/xpl/articleDetails.jsp?arnumber=7214035>>
<<Har angiveligt submittet ny version - afventer opdatering>> GNU Parallel was used (unfortunately without citation) in: MUGBAS: a species free gene-based programme suite for post-GWAS analysis http://www.ncbi.nlm.nih.gov/pubmed/25765345 <<Har angiveligt submittet ny version - afventer opdatering>> GNU Parallel was used (unfortunately without citation) in: MUGBAS: a species free gene-based programme suite for post-GWAS analysis http://www.ncbi.nlm.nih.gov/pubmed/25765345

View file

@ -24,7 +24,7 @@
use strict; use strict;
use Getopt::Long; use Getopt::Long;
$Global::progname="niceload"; $Global::progname="niceload";
$Global::version = 20170522; $Global::version = 20170523;
Getopt::Long::Configure("bundling","require_order"); Getopt::Long::Configure("bundling","require_order");
get_options_from_array(\@ARGV) || die_usage(); get_options_from_array(\@ARGV) || die_usage();
if($opt::version) { if($opt::version) {

View file

@ -1376,7 +1376,7 @@ sub check_invalid_option_combinations {
sub init_globals { sub init_globals {
# Defaults: # Defaults:
$Global::version = 20170522; $Global::version = 20170523;
$Global::progname = 'parallel'; $Global::progname = 'parallel';
$Global::infinity = 2**31; $Global::infinity = 2**31;
$Global::debug = 0; $Global::debug = 0;

View file

@ -341,7 +341,7 @@ B<:::> and B<::::> can be mixed. So these are equivalent:
::: 1 2 3 ::: 1 2 3
=item B<:::+> I<arguments> (alpha testing) =item B<:::+> I<arguments> (beta testing)
Like B<:::> but linked like B<--link> to the previous input source. Like B<:::> but linked like B<--link> to the previous input source.
@ -362,7 +362,7 @@ B<:::> and B<::::> can be mixed.
See B<-a>, B<:::> and B<--link>. See B<-a>, B<:::> and B<--link>.
=item B<::::+> I<argfiles> (alpha testing) =item B<::::+> I<argfiles> (beta testing)
Like B<::::> but linked like B<--link> to the previous input source. Like B<::::> but linked like B<--link> to the previous input source.
@ -418,7 +418,7 @@ string that is not in the command line.
See also: B<:::>. See also: B<:::>.
=item B<--bar> (alpha testing) =item B<--bar> (beta testing)
Show progress as a progress bar. In the bar is shown: % of jobs Show progress as a progress bar. In the bar is shown: % of jobs
completed, estimated seconds left, and number of jobs started. completed, estimated seconds left, and number of jobs started.
@ -656,7 +656,7 @@ variables, arrays, and functions) use B<env_parallel>.
See also: B<--record-env>. See also: B<--record-env>.
=item B<--eta> (alpha testing) =item B<--eta> (beta testing)
Show the estimated number of seconds before finishing. This forces GNU Show the estimated number of seconds before finishing. This forces GNU
B<parallel> to read all jobs before starting to find the number of B<parallel> to read all jobs before starting to find the number of
@ -744,9 +744,9 @@ See also: B<--line-buffer> B<--ungroup>
Print a summary of the options to GNU B<parallel> and exit. Print a summary of the options to GNU B<parallel> and exit.
=item B<--halt-on-error> I<val> (alpha testing) =item B<--halt-on-error> I<val> (beta testing)
=item B<--halt> I<val> (alpha testing) =item B<--halt> I<val> (beta testing)
When should GNU B<parallel> terminate? In some situations it makes no When should GNU B<parallel> terminate? In some situations it makes no
sense to run all jobs. GNU B<parallel> should simply give up as soon sense to run all jobs. GNU B<parallel> should simply give up as soon
@ -891,7 +891,7 @@ specified, and for B<-I {}> otherwise. This option is deprecated;
use B<-I> instead. use B<-I> instead.
=item B<--joblog> I<logfile> (alpha testing) =item B<--joblog> I<logfile> (beta testing)
Logfile for executed jobs. Save a list of the executed jobs to Logfile for executed jobs. Save a list of the executed jobs to
I<logfile> in the following TAB separated format: sequence number, I<logfile> in the following TAB separated format: sequence number,
@ -1076,7 +1076,7 @@ Arguments will be recycled if one input source has more arguments than the other
See also B<--header>, B<:::+>, B<::::+>. See also B<--header>, B<:::+>, B<::::+>.
=item B<--load> I<max-load> (alpha testing) =item B<--load> I<max-load> (beta testing)
Do not start new jobs on a given computer unless the number of running Do not start new jobs on a given computer unless the number of running
processes on the computer is less than I<max-load>. I<max-load> uses processes on the computer is less than I<max-load>. I<max-load> uses
@ -1254,7 +1254,7 @@ control on the command line (used by GNU B<parallel> internally when
called with B<--sshlogin>). called with B<--sshlogin>).
=item B<--plus> (beta testing) =item B<--plus>
Activate additional replacement strings: {+/} {+.} {+..} {+...} {..} Activate additional replacement strings: {+/} {+.} {+..} {+...} {..}
{...} {/..} {/...} {##}. The idea being that '{+foo}' matches the opposite of {...} {/..} {/...} {##}. The idea being that '{+foo}' matches the opposite of
@ -1767,7 +1767,7 @@ impossible to track which input block corresponds to which output.
B<--round-robin> implies B<--pipe>, except if B<--pipepart> is given. B<--round-robin> implies B<--pipe>, except if B<--pipepart> is given.
=item B<--rpl> 'I<tag> I<perl expression>' (alpha testing) =item B<--rpl> 'I<tag> I<perl expression>' (beta testing)
Use I<tag> as a replacement string for I<perl expression>. This makes Use I<tag> as a replacement string for I<perl expression>. This makes
it possible to define your own replacement strings. GNU B<parallel>'s it possible to define your own replacement strings. GNU B<parallel>'s
@ -2236,7 +2236,7 @@ B<{}>.
B<--tagstring> is ignored when using B<-u>, B<--onall>, and B<--nonall>. B<--tagstring> is ignored when using B<-u>, B<--onall>, and B<--nonall>.
=item B<--tee> (beta testing) =item B<--tee>
Pipe all data to all jobs. Used with B<--pipe>/B<--pipepart> and Pipe all data to all jobs. Used with B<--pipe>/B<--pipepart> and
B<:::>. B<:::>.
@ -2277,13 +2277,13 @@ different dir for the files. Setting B<--tmpdir> is equivalent to
setting $TMPDIR. setting $TMPDIR.
=item B<--tmux> (alpha testing) =item B<--tmux> (beta testing)
Use B<tmux> for output. Start a B<tmux> session and run each job in a Use B<tmux> for output. Start a B<tmux> session and run each job in a
window in that session. No other output will be produced. window in that session. No other output will be produced.
=item B<--tmuxpane> (alpha testing) =item B<--tmuxpane> (beta testing)
Use B<tmux> for output but put output into panes in the first window. Use B<tmux> for output but put output into panes in the first window.
Useful if you want to monitor the progress of less than 100 concurrent Useful if you want to monitor the progress of less than 100 concurrent
@ -2771,16 +2771,16 @@ foo) you can do:
If you want to remove a different ending, you can use {%string}: If you want to remove a different ending, you can use {%string}:
parallel --plus echo {%_beta} ::: mycode_beta keep_beta_here parallel --plus echo {%_demo} ::: mycode_demo keep_demo_here
You can also remove a starting string with {#string} You can also remove a starting string with {#string}
parallel --plus echo {#beta_} ::: beta_mycode keep_beta_here parallel --plus echo {#demo_} ::: demo_mycode keep_demo_here
To remove a string anywhere you can use regular expressions with To remove a string anywhere you can use regular expressions with
{/regexp/replacement} and leave the replacement empty: {/regexp/replacement} and leave the replacement empty:
parallel --plus echo {/beta_/} ::: beta_mycode remove_beta_here parallel --plus echo {/demo_/} ::: demo_mycode remove_demo_here
=head1 EXAMPLE: Download 24 images for each of the past 30 days =head1 EXAMPLE: Download 24 images for each of the past 30 days

View file

@ -25,7 +25,7 @@ the destination variable and made to an array.
If I<variablename> contains multiple names separated by ',' or space, If I<variablename> contains multiple names separated by ',' or space,
the names will be the destination variables. the names will be the destination variables.
B<parset> is not production ready and alpha quality. B<parset> is not production ready and is beta quality.
=head1 OPTIONS =head1 OPTIONS

View file

@ -576,7 +576,7 @@ $Global::Initfile && unlink $Global::Initfile;
exit ($err); exit ($err);
sub parse_options { sub parse_options {
$Global::version = 20170522; $Global::version = 20170523;
$Global::progname = 'sql'; $Global::progname = 'sql';
# This must be done first as this may exec myself # This must be done first as this may exec myself