import bibtexparser
import os.path

INVIS = "[](@autogenerated - invisible comment)"
with open('all.bib') as bibtex_file:
    bib_database = bibtexparser.load(bibtex_file)

#print(bib_database.entries)
print(bib_database.comments)
print(bib_database.preambles)
print(bib_database.strings)
[]
[]
OrderedDict()
AllRefs = ""
for k in bib_database.entries:
    #print k.keys()
    m = "* "
    if os.path.isfile("ArticlesPDF/"+k["ID"]+".pdf"):
        m += "[x] "
    else:
        m += "[ ] "
    m += "["+k["ID"]+"] __"+k["title"]+"__"
    if "author" in k.keys():
        m += " by "+k["author"]

    if "doi" in k.keys():
        m += ". (_DOI: ["+k["doi"]+"](https://doi.org/"+k["doi"]+")_)."
        if not os.path.isfile("ArticlesPDF/"+k["ID"]+".pdf"):
            print m.replace("{","").replace("}","")
    AllRefs += m+"\n"
* [ ] [walter_use_nodate] __Use of a Simple, Inexpensive Dual-Modality Phantom as a Learning Tool for Magnetic Resonance Imaging–Ultrasound Fusion Techniques__ by Walter, William R. and Burke, Christopher J. and Diallo, Mamadou and Adler, Ronald S.. (_DOI: [10.1002/jum.14550](https://doi.org/10.1002/jum.14550)_).
* [ ] [raj_embedded_2014] __An embedded system for elasticity measurement using ultrasound waves__ by Raj, Jean and Smk, Rahman and Anand, Sneh. (_DOI: [10.13140/RG.2.1.2175.0165](https://doi.org/10.13140/RG.2.1.2175.0165)_).
* [ ] [cowell_-situ_2017] __In-situ measurement of transducer impedance using AFE active termination through analysis of ultrasound echoes__ by Cowell, D. and Carpenter, T. and Fisher, B. and Freear, S.. (_DOI: [10.1109/ULTSYM.2017.8092162](https://doi.org/10.1109/ULTSYM.2017.8092162)_).
* [ ] [chang_novel_2007] __A Novel Envelope Detector for High-Frame Rate, High-Frequency Ultrasound Imaging__ by Chang, Jin and Yen, Jesse and Shung, K.. (_DOI: [10.1109/TUFFC.2007.463](https://doi.org/10.1109/TUFFC.2007.463)_).
* [ ] [park_implementation_2018] __Implementation of a backend system for real-time intravascular ultrasound imaging__ by Park, Jun-Won and Moon, Ju-Young and Lee, Junsu and Chang, Jin Ho. (_DOI: [10.7776/ASK2018.37.4.215](https://doi.org/10.7776/ASK2018.37.4.215)_).
* [ ] [santagati_implantable_2017] __An implantable low-power ultrasonic platform for the Internet of Medical Things__ by Santagati, G. E. and Melodia, T.. (_DOI: [10.1109/INFOCOM.2017.8057133](https://doi.org/10.1109/INFOCOM.2017.8057133)_).
* [ ] [sosnowska_training_2019] __Training Towards Precise Control Over Muscle Activity with Real Time Biofeedback Based on Ultrasound Imaging__ by Sosnowska, Anna and Vuckovic, Aleksandra and Gollee, Henrik. (_DOI: [10.1007/978-981-10-9035-6_9](https://doi.org/10.1007/978-981-10-9035-6_9)_).
text_file = open("AllRefs.md", "w")
text_file.write(AllRefs.encode('utf8').replace("{","").replace("}","")+"\n"+INVIS)
text_file.close()


AllRefs = ""
for k in bib_database.entries:
    #print k.keys()
    m = "* "
    if os.path.isfile("ArticlesPDF/"+k["ID"]+".pdf"):
        m += "[x] "
    else:
        m += "[ ] "
    m += "["+k["ID"]+"] __"+k["title"]+"__"
    if "author" in k.keys():
        m += " by "+k["author"]

    if "doi" not in k.keys():
        if not os.path.isfile("ArticlesPDF/"+k["ID"]+".pdf"):
            print m.replace("{","").replace("}","")
    AllRefs += m+"\n"
* [ ] [thomenius_instrumentation_2018] __INSTRUMENTATION DESIGN FOR ULTRASONIC IMAGING__ by Thomenius, Kai
* [ ] [lecklider_ultrasound_2012] __Ultrasound imaging: more than skin-deep__ by Lecklider, Tom
* [ ] [wall_high-speed_2010] __A High-Speed Reconfigurable System for Ultrasound Research__ by Wall, Kieran
* [ ] [countries_future_1985] __Future use of new imaging technologies in developing countries : report of a WHO scientific group [meeting held in Geneva from 24 September to 1 October 1984]__ by Countries, WHO Scientific Group on the Future Use of New Imaging Technologies in Developing and Organization, World Health
* [ ] [lunt_handbook_1978] __Handbook of ultrasonic B-scanning in medicine__ by Lunt, R.
* [ ] [buess_[system_1984] __[A system for a transanal endoscopic rectum operation]__ by Buess, G. and Hutterer, F. and Theiss, J. and Böbel, M. and Isselhard, W. and Pichlmaier, H.
* [ ] [kremkau_diagnostic_1989] __Diagnostic ultrasound: principles, instruments, and exercises__ by Kremkau, Frederick W.
* [ ] [holm_abdominal_1976] __Abdominal ultrasound__
* [ ] [joyner_ultrasound_1974] __Ultrasound in the diagnosis of cardiovascular-pulmonary disease__
* [ ] [carlin_ultrasonics_1960] __Ultrasonics__ by Carlin, Benson
* [ ] [ribas_logiciels_2016] __Logiciels \& objets libres: Animer une communauté autour d'un projet ouvert__ by Ribas, Stéphane and Ubeda, Stéphane and Guillaud, Patrick
* [ ] [zhang_fpga_2012] __FPGA embedded system for ultrasonic non-destructive testing__ by Zhang, Lei
* [ ] [silverman_effect_1995] __The effect of transducer bandwidth on ultrasonic image characteristics__ by Silverman, R. H. and Vinarsky, E. and Woods, S. M. and Lizzi, F. L. and Coleman, D. J.
* [ ] [sampson_sonic_2014] __Sonic Millip3De: An Architecture for Handheld 3D Ultrasound__ by Sampson, R. and Yang, M. and Wei, S. and Chakrabarti, C. and Wenisch, T. F.
* [ ] [noauthor_programmable_nodate] __A programmable real-time system for development and test of new ultrasound investigation methods - IEEE Journals \& Magazine__
* [ ] [noauthor_fast_nodate] __Fast parametric beamformer for synthetic aperture imaging - IEEE Journals \& Magazine__
* [ ] [noauthor_compact_nodate] __Compact FPGA-based beamformer using oversampled 1-bit A/D converters - IEEE Journals \& Magazine__
* [ ] [nikolov_fast_2008] __Fast parametric beamformer for synthetic aperture imaging__ by Nikolov, S. I. and Jensen, J. A. and Tomov, B. G.
* [ ] [noauthor_acoustic_nodate] __Acoustic echoes reveal room shape \textbar PNAS__
* [ ] [batbayar_hardware_2018] __A Hardware Design of Capture Multichannel Ultrasound Raw Signal for Photoacoustic Medical Image__ by Batbayar, Enkhbat and Ham, Woonchul and Tumenjargal, Enkhbaatar and Song, Chulgyu




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